Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009124.1 Hibiscus syriacus cultivar Beakdansim tig00112614_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 858217
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:2933 original size:19 final size:19
Alignment explanation
Indices: 2909--2947 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
2899 TTACTTGCAG
2909 AAGTTTCCTTAGAAAATGC
1 AAGTTTCCTTAGAAAATGC
2928 AAGTTTCCTTAGAAAATGC
1 AAGTTTCCTTAGAAAATGC
2947 A
1 A
2948 TACTTCTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (19 bp):
AAGTTTCCTTAGAAAATGC
Found at i:3702 original size:252 final size:253
Alignment explanation
Indices: 3250--3754 Score: 913
Period size: 252 Copynumber: 2.0 Consensus size: 253
3240 TGCCAATTAT
* * *
3250 CCCAAGAAATTTTTTCTGATGTGGAAGATCAGCCTAAGCTGCAACCACAGAGCATACTAAAATAA
1 CCCAAGAAATTTTTTCTGATGTGGAAGATCAGCCTAAGCCGCAACCACAAAACATACTAAAATAA
3315 ACCAAGAGCGTTGATACCAATTGTTGTGGAATTCAGGTTAATTTCCACCAATAATAACAAATTCA
66 ACCAAGAGCGTTGATACCAATTGTTGTGGAATTCAGGTTAATTTCCACCAATAATAACAAATTCA
*
3380 CCTTGAAAACTATTATCTAGGTGACTAGTGTGAAAATGATTGTACTAAAAATCACACCAAGGTAG
131 CCTTGAAAACTATTATCTAGGTGACTAGTGTGAAAACGATTGTACTAAAAATCACACCAAGGTAG
3445 ATTCCCAGGAAAGAGGAGGGGTCACAATGGTCCCTCTTAAAACCCACTTTCCTTAGAC
196 ATTCCCAGGAAAGAGGAGGGGTCACAATGGTCCCTCTTAAAACCCACTTTCCTTAGAC
* *
3503 CCCAATAAATTTTTTCTGATGTGGAAGATCAGCCTAAGCCGCAACCACAAAACATA-TTAAATAA
1 CCCAAGAAATTTTTTCTGATGTGGAAGATCAGCCTAAGCCGCAACCACAAAACATACTAAAATAA
* * *
3567 ACCAAGAGCGTTGATACTAATTGTTGTGGAATTCGGGTTAATTTTCACCAATAATAACAAATTCA
66 ACCAAGAGCGTTGATACCAATTGTTGTGGAATTCAGGTTAATTTCCACCAATAATAACAAATTCA
3632 CCTTGAAAACTATTATCTAGGTGACTAGTGTGAAAACGATTGTACTAAAAATCACACCAAGGTAG
131 CCTTGAAAACTATTATCTAGGTGACTAGTGTGAAAACGATTGTACTAAAAATCACACCAAGGTAG
*
3697 ATTCCCAGGAAAGAGGAGGGGTCACAATGGTCCCTCTTAAAACCCATTTTCCTTAGAC
196 ATTCCCAGGAAAGAGGAGGGGTCACAATGGTCCCTCTTAAAACCCACTTTCCTTAGAC
3755 AGAACTACCA
Statistics
Matches: 242, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
252 190 0.79
253 52 0.21
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.26
Consensus pattern (253 bp):
CCCAAGAAATTTTTTCTGATGTGGAAGATCAGCCTAAGCCGCAACCACAAAACATACTAAAATAA
ACCAAGAGCGTTGATACCAATTGTTGTGGAATTCAGGTTAATTTCCACCAATAATAACAAATTCA
CCTTGAAAACTATTATCTAGGTGACTAGTGTGAAAACGATTGTACTAAAAATCACACCAAGGTAG
ATTCCCAGGAAAGAGGAGGGGTCACAATGGTCCCTCTTAAAACCCACTTTCCTTAGAC
Found at i:5195 original size:17 final size:18
Alignment explanation
Indices: 5162--5200 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
5152 CATATACATC
*
5162 TAAT-TTATAATGATAAA
1 TAATATTATAACGATAAA
5179 TAATATTATAACG-TAAA
1 TAATATTATAACGATAAA
5196 TAATA
1 TAATA
5201 AACAACATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (18 bp):
TAATATTATAACGATAAA
Found at i:5710 original size:17 final size:17
Alignment explanation
Indices: 5688--5726 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
5678 ATATGTTGTT
5688 TATTATTTA-CATTATAA
1 TATTATTTATCATTAT-A
5705 TATTATTTATCATTATA
1 TATTATTTATCATTATA
5722 TATTA
1 TATTA
5727 AATGTACATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTATTTATCATTATA
Found at i:6852 original size:17 final size:18
Alignment explanation
Indices: 6818--6853 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
6808 CACGGAATGT
6818 AAGATTACCAGTGGAATA
1 AAGATTACCAGTGGAATA
6836 AAGATTACCAG-GGAATA
1 AAGATTACCAGTGGAATA
6853 A
1 A
6854 TTACTGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.47, C:0.11, G:0.22, T:0.19
Consensus pattern (18 bp):
AAGATTACCAGTGGAATA
Found at i:8782 original size:21 final size:23
Alignment explanation
Indices: 8756--8797 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
8746 AATTTAAAAA
8756 AAAAATACA-AA-AATAAAAAGG
1 AAAAATACATAATAATAAAAAGG
8777 AAAAATACATAATAATAAAAA
1 AAAAATACATAATAATAAAAA
8798 CAAAAGGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.47
22 2 0.11
23 8 0.42
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.14
Consensus pattern (23 bp):
AAAAATACATAATAATAAAAAGG
Found at i:8802 original size:21 final size:19
Alignment explanation
Indices: 8750--8802 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 19
8740 TGTCTTAATT
8750 TAAAAAAAAAATACAAAAA
1 TAAAAAAAAAATACAAAAA
8769 TAAAAAGGAAAAATACATAATAA
1 TAAAAA--AAAAATACA-AA-AA
8792 TAAAAACAAAA
1 TAAAAA-AAAA
8803 GGAAACTCTC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 6 0.21
21 9 0.31
22 6 0.21
23 8 0.28
ACGTcount: A:0.77, C:0.06, G:0.04, T:0.13
Consensus pattern (19 bp):
TAAAAAAAAAATACAAAAA
Found at i:16056 original size:31 final size:31
Alignment explanation
Indices: 16021--16088 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
16011 TAACAAATTA
*
16021 GTCACTAACGTTATCGGTTTGT-GACAAAATG
1 GTCACTAACGTTATCGATTTGTAG-CAAAATG
*
16052 GTCACTGACGTTATCGATTTGTAGCAAAATG
1 GTCACTAACGTTATCGATTTGTAGCAAAATG
16083 GTCACT
1 GTCACT
16089 TCATCATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 33 0.97
32 1 0.03
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (31 bp):
GTCACTAACGTTATCGATTTGTAGCAAAATG
Found at i:17002 original size:31 final size:31
Alignment explanation
Indices: 16949--17029 Score: 108
Period size: 31 Copynumber: 2.5 Consensus size: 31
16939 ATAACGGTGG
* *
16949 AGTGACCATTTTTTTTTACAAATCGATAACGTT
1 AGTGACCA--TTTTGTTACAAATCGATAACATT
*
16982 AGTGATCATTTTGTTACAAATCGATAACATT
1 AGTGACCATTTTGTTACAAATCGATAACATT
*
17013 AGTGACCAATTTGTTAC
1 AGTGACCATTTTGTTAC
17030 TTTTGAAACT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 36 0.84
33 7 0.16
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.40
Consensus pattern (31 bp):
AGTGACCATTTTGTTACAAATCGATAACATT
Found at i:22275 original size:182 final size:182
Alignment explanation
Indices: 21966--22417 Score: 699
Period size: 182 Copynumber: 2.5 Consensus size: 182
21956 TTTTTACTAT
* * *
21966 CGGTTTTGTCATTTCGAGATCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATAC
1 CGGTTTTGTCATTTCAAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATAC
* * * *
22031 ATTTTTATAAAGTATCGACACTTTATTGGTGCTATAACTTCTTTTCTTTTAAATTTCAAAAGTGT
66 ATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGT
* *
22096 CGATACTTATAATAAAATATCGACACTATCAACATATCCGGTAGCTCTTTAC
131 CGATACTTATAATAAAATATCGACACTATCAACATATACGGTAGCGCTTTAC
* *
22148 CGGTTTTATCATTTCAAGACCGGTTTTGTCATATTTTTACCTGTCATATTGTTATGGATCGATAC
1 CGGTTTTGTCATTTCAAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATAC
*
22213 ATTTTTATAAAGTATCGACACTTTATTAGCGCTATAATTTCTTCTCTTTTAAATTCCAAAAGTGT
66 ATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGT
* *
22278 CGATACTTATAATAAAGTATCGACACTATCAACATATATGGTAGCGCTTTAC
131 CGATACTTATAATAAAATATCGACACTATCAACATATACGGTAGCGCTTTAC
* * * * *
22330 CTGTTTTGTCATTT-ATAGACTGGTTTTGTCATTTTTATTACCTGTTTTATTGTTATAGATCGAT
1 CGGTTTTGTCATTTCA-AGACCGGTTTTGTCATATTT-TTACCTGTTATATTGTTATGGATCGAT
*
22394 ATATTTTTATAAAGTATCGACACT
64 ACATTTTTATAAAGTATCGACACT
22418 ATCAACATAT
Statistics
Matches: 246, Mismatches: 22, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
181 1 0.00
182 198 0.80
183 47 0.19
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (182 bp):
CGGTTTTGTCATTTCAAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATAC
ATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGT
CGATACTTATAATAAAATATCGACACTATCAACATATACGGTAGCGCTTTAC
Found at i:22645 original size:113 final size:113
Alignment explanation
Indices: 22289--22754 Score: 727
Period size: 113 Copynumber: 4.1 Consensus size: 113
22279 GATACTTATA
** *
22289 ATAAAGTATCGACACTATCAACATATATGGTAGCGCTTTACCTGTTTTGTCATTTATAGACTGGT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * * * * *
22354 TTTGTCATTTTTATTACCTGTTTTATTGTTATAGATCGATATATTTTT
66 TTTGTCATTTTTTTTACCTGTTATATTATTATGGATCAATACATTTTT
22402 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
22467 TTTGTCA-TTTTTTTACCTGTTATATTATTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTTACCTGTTATATTATTATGGATCAATACATTTTT
* * *
22514 ATAAAGTATCGACACTTTCAATATATCCAGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
22579 TTTGTCATTTTTTTTACCTGTTATATTATTATGGATAAATACATTTTT
66 TTTGTCATTTTTTTTACCTGTTATATTATTATGGATCAATACATTTTT
* * * * *
22627 ATAAAGTATTGACACTTTCAATATATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCAGT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * *
22692 TTTGTCATTTTTTTTACTTGTTATATTGTTATGGATCAATATATTTTT
66 TTTGTCATTTTTTTTACCTGTTATATTATTATGGATCAATACATTTTT
22740 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
22755 AAACCGACAA
Statistics
Matches: 330, Mismatches: 22, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
112 104 0.32
113 226 0.68
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.45
Consensus pattern (113 bp):
ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTTACCTGTTATATTATTATGGATCAATACATTTTT
Found at i:22680 original size:225 final size:226
Alignment explanation
Indices: 22289--22754 Score: 727
Period size: 225 Copynumber: 2.1 Consensus size: 226
22279 GATACTTATA
** *
22289 ATAAAGTATCGACACTATCAACATATATGGTAGCGCTTTACCTGTTTTGTCATTTATAGACTGGT
1 ATAAAGTATCGACACTATCAACATATACAGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * ** *
22354 TTTGTCATTTTTATTACCTGTTTTATTGTTATAGATCGATATATTTTTATAAAGTATCGACACTA
66 TTTGTCATTTTTATTACCTGTTATATTATTATAGATAAATACATTTTTATAAAGTATCGACACTA
* *
22419 TCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCA-TTTTTTTAC
131 TCAACATATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCAGTTTTGTCATTTTTTTTAC
*
22483 CTGTTATATTATTATGGATCGATACATTTTT
196 CTGTTATATTATTATGGATCAATACATTTTT
* * *
22514 ATAAAGTATCGACACTTTCAATATATCCAGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTATCAACATATACAGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * * *
22579 TTTGTCATTTTTTTTACCTGTTATATTATTATGGATAAATACATTTTTATAAAGTATTGACACTT
66 TTTGTCATTTTTATTACCTGTTATATTATTATAGATAAATACATTTTTATAAAGTATCGACACTA
*
22644 TCAATATATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCAGTTTTGTCATTTTTTTTAC
131 TCAACATATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCAGTTTTGTCATTTTTTTTAC
* * *
22709 TTGTTATATTGTTATGGATCAATATATTTTT
196 CTGTTATATTATTATGGATCAATACATTTTT
22740 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
22755 AAACCGACAA
Statistics
Matches: 218, Mismatches: 22, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
225 167 0.77
226 51 0.23
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.45
Consensus pattern (226 bp):
ATAAAGTATCGACACTATCAACATATACAGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTATTACCTGTTATATTATTATAGATAAATACATTTTTATAAAGTATCGACACTA
TCAACATATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCAGTTTTGTCATTTTTTTTAC
CTGTTATATTATTATGGATCAATACATTTTT
Found at i:30063 original size:21 final size:21
Alignment explanation
Indices: 29988--30064 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 21
29978 CGCAAATCAG
*
29988 TTTCCAGAATCGCGTTGCGAT
1 TTTCCAGAATCGCATTGCGAT
* ** * *
30009 TCTGGAAAATCGCAATGCGAT
1 TTTCCAGAATCGCATTGCGAT
** *
30030 AGTACA-AATTCGCATTGCGAT
1 TTTCCAGAA-TCGCATTGCGAT
30051 TTTCCAGAATCGCA
1 TTTCCAGAATCGCA
30065 ACGCGAATAT
Statistics
Matches: 40, Mismatches: 14, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
20 2 0.05
21 36 0.90
22 2 0.05
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (21 bp):
TTTCCAGAATCGCATTGCGAT
Found at i:30083 original size:20 final size:20
Alignment explanation
Indices: 30058--30330 Score: 142
Period size: 20 Copynumber: 13.4 Consensus size: 20
30048 GATTTTCCAG
*
30058 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGAA
* *
30078 AATCGCAACGCGAACA-TATA
1 AATCGCAACGCGAATACGA-A
* * * *
30098 TATCGCAACGAGTATTCGTAAA
1 AATCGCAACGCGAATACG--AA
* * *
30120 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
*
30140 AATCGCAACGAGAATACGTAA
1 AATCGCAACGCGAATACG-AA
* * *
30161 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
*
30181 AATCGCAACGAGAATACGTAA
1 AATCGCAACGCGAATACG-AA
* *
30202 AATCGCAACGCG-ATTCTGAT
1 AATCGCAACGCGAATAC-GAA
* **
30222 TATCGCAAC-CAGAATACGTT
1 AATCGCAACGC-GAATACGAA
* *
30242 AATCGCAACGAGAAT-CTGTA
1 AATCGCAACGCGAATAC-GAA
** * *
30262 AATCGCAACGATAATCCGTA
1 AATCGCAACGCGAATACGAA
** * *
30282 AATCGCAACGATAATCCGTA
1 AATCGCAACGCGAATACGAA
* *
30302 AATCGCAACGAGAAT-CTATA
1 AATCGCAACGCGAATACGA-A
30322 AATCGCAAC
1 AATCGCAAC
30331 ACTTAAATTT
Statistics
Matches: 203, Mismatches: 37, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
19 4 0.02
20 149 0.73
21 33 0.16
22 16 0.08
23 1 0.00
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATACGAA
Found at i:30124 original size:62 final size:60
Alignment explanation
Indices: 30058--30330 Score: 189
Period size: 60 Copynumber: 4.5 Consensus size: 60
30048 GATTTTCCAG
* * *
30058 AATCGCAACGCGAATATGAAAATCGCAACGCGA-ACATATATATCGCAACGAGTATTCGTAAA
1 AATCGCAACGCGAATACGAAAATCGCAACGCGATACATA-AAATCGCAACGAGTATCCGT--A
* * * * * *
30120 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAAAATCGCAACGCG-ATACATAAAATCGCAACGAGTATCCGTA
* * ** * * * *
30181 AATCGCAACGAGAATACGTAAAATCGCAACGCGATTC-TGATTATCGCAACCAGAATACGTT
1 AATCGCAACGCGAATACG-AAAATCGCAACGCGATACAT-AAAATCGCAACGAGTATCCGTA
* * ** * *
30242 AATCGCAACGAGAAT-CTGTAAATCGCAACGATAATCCGT-AAATCGCAACGA-TAATCCGTA
1 AATCGCAACGCGAATAC-GAAAATCGCAACG-CGATACATAAAATCGCAACGAGT-ATCCGTA
* *
30302 AATCGCAACGAGAAT-CTATAAATCGCAAC
1 AATCGCAACGCGAATACGA-AAATCGCAAC
30331 ACTTAAATTT
Statistics
Matches: 168, Mismatches: 34, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
60 53 0.32
61 53 0.32
62 40 0.24
63 18 0.11
64 4 0.02
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGAATACGAAAATCGCAACGCGATACATAAAATCGCAACGAGTATCCGTA
Found at i:30267 original size:40 final size:41
Alignment explanation
Indices: 30058--30330 Score: 283
Period size: 40 Copynumber: 6.7 Consensus size: 41
30048 GATTTTCCAG
* * *
30058 AATCGCAACGCGAATATG-AAAATCGCAACGCGAA--CATA
1 AATCGCAACGAGAATACGTAAAATCGCAACGCGAATCCGTA
* * *
30096 TATATCGCAACGAGTATTCGTAAAAATCGCAACGCGTATCCGTA
1 -A-ATCGCAACGAGAATACGT-AAAATCGCAACGCGAATCCGTA
*
30140 AATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGAGAATACGTAAAATCGCAACGCGAATCCGTA
* *
30181 AATCGCAACGAGAATACGTAAAATCGCAACGCGATTCTG-A
1 AATCGCAACGAGAATACGTAAAATCGCAACGCGAATCCGTA
* * * * *
30221 TTATCGCAACCAGAATACGT-TAATCGCAACGAGAATCTGTA
1 -AATCGCAACGAGAATACGTAAAATCGCAACGCGAATCCGTA
* * **
30262 AATCGCAACGATAATCCGT-AAATCGCAACGATAATCCGTA
1 AATCGCAACGAGAATACGTAAAATCGCAACGCGAATCCGTA
30302 AATCGCAACGAGAAT-C-TATAAATCGCAAC
1 AATCGCAACGAGAATACGTA-AAATCGCAAC
30331 ACTTAAATTT
Statistics
Matches: 201, Mismatches: 24, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
38 1 0.00
39 2 0.01
40 87 0.43
41 76 0.38
42 31 0.15
43 1 0.00
44 3 0.01
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.19
Consensus pattern (41 bp):
AATCGCAACGAGAATACGTAAAATCGCAACGCGAATCCGTA
Found at i:31013 original size:12 final size:12
Alignment explanation
Indices: 30992--31025 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
30982 ACCACATTTC
*
30992 CAATACCAAACA
1 CAATATCAAACA
31004 CAATATCAAACA
1 CAATATCAAACA
*
31016 CAATCTCAAA
1 CAATATCAAA
31026 ACCTACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:31183 original size:24 final size:24
Alignment explanation
Indices: 31151--31204 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
31141 GTATTCGAAA
31151 TTTGATCTTGATCAATACCCGGAC
1 TTTGATCTTGATCAATACCCGGAC
* * *
31175 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGATCAATACCCGGAC
31199 TTTGAT
1 TTTGAT
31205 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGATCAATACCCGGAC
Found at i:33732 original size:19 final size:19
Alignment explanation
Indices: 33708--33906 Score: 159
Period size: 19 Copynumber: 11.4 Consensus size: 19
33698 ACAACGAGAG
33708 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
33727 AATCGCAA--C---TTGAA
1 AATCGCAATGCGAAATGAA
*
33741 AATCGCAACGCGAATATGAA
1 AATCGCAATGCGAA-ATGAA
* * *
33761 TATCGCAACGCGGAAATGAC
1 AATCGCAATGC-GAAATGAA
*
33781 TATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
33800 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
33814 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
33833 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
33847 AATCGCAATGCAAAATGAA
1 AATCGCAATGCGAAATGAA
33866 AATCGCAA--CG--A-GAA
1 AATCGCAATGCGAAATGAA
33880 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
33899 AATCGCAA
1 AATCGCAA
33907 CGAAAGAATC
Statistics
Matches: 145, Mismatches: 13, Indels: 44
0.72 0.06 0.22
Matches are distributed among these distances:
14 43 0.30
15 3 0.02
16 6 0.04
17 6 0.04
18 3 0.02
19 53 0.37
20 28 0.19
21 3 0.02
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:33742 original size:14 final size:14
Alignment explanation
Indices: 33723--33749 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33713 CAATGCGAAA
33723 TGAAAATCGCAACT
1 TGAAAATCGCAACT
33737 TGAAAATCGCAAC
1 TGAAAATCGCAAC
33750 GCGAATATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.22, G:0.15, T:0.19
Consensus pattern (14 bp):
TGAAAATCGCAACT
Found at i:33745 original size:33 final size:33
Alignment explanation
Indices: 33675--33919 Score: 294
Period size: 33 Copynumber: 7.2 Consensus size: 33
33665 TCATTTGACT
* * * *
33675 ATCGCAATGCGGAAATTACAATCACAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAAA
**
33709 ATCGCAATGCGAAATGAAAATCGCAACTTGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
* * *
33742 ATCGCAACGCGAATATGAATATCGCAACGCGGAAATGA
1 ATCGCAATGCGAA-ATGAAAATCGCAACG-AG-AA--A
*
33780 CTATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 --ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
*
33815 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
*
33848 ATCGCAATGCAAAATGAAAATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
33881 ATCGCAATGCGAAATGAAAATCGCAACGA-AAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAA-A
33914 ATCGCA
1 ATCGCA
33920 CTCGTTGCGA
Statistics
Matches: 186, Mismatches: 17, Indels: 17
0.85 0.08 0.08
Matches are distributed among these distances:
32 2 0.01
33 128 0.69
34 23 0.12
35 2 0.01
36 2 0.01
37 1 0.01
38 2 0.01
39 14 0.08
40 12 0.06
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:33894 original size:14 final size:14
Alignment explanation
Indices: 33797--33919 Score: 68
Period size: 14 Copynumber: 7.7 Consensus size: 14
33787 AATGCGAAAT
33797 GAAAATCGCAACGA
1 GAAAATCGCAACGA
*
33811 GAGAATCGCAATGCGAAA
1 GAAAATCGCAA--CG--A
33829 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
* *
33844 GAGAATCGCAATGCAAAA
1 GAAAATCGCAA--C--GA
33862 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
33877 GAAAATCGCAATGCGAAA
1 GAAAATCGCAA--CG--A
33895 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
33910 -AAGAATCGCA
1 GAA-AATCGCA
33920 CTCGTTGCGA
Statistics
Matches: 87, Mismatches: 6, Indels: 32
0.70 0.05 0.26
Matches are distributed among these distances:
13 2 0.02
14 38 0.44
15 3 0.03
16 5 0.06
17 5 0.06
18 3 0.03
19 31 0.36
ACGTcount: A:0.48, C:0.19, G:0.22, T:0.11
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:34075 original size:14 final size:14
Alignment explanation
Indices: 34056--34092 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
34046 CATCAATTAA
34056 ACAAATCAACTTGT
1 ACAAATCAACTTGT
* *
34070 ACAAATCATCTTTT
1 ACAAATCAACTTGT
34084 ACAAATCAA
1 ACAAATCAA
34093 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.46, C:0.22, G:0.03, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTGT
Found at i:34234 original size:82 final size:84
Alignment explanation
Indices: 34059--34235 Score: 313
Period size: 83 Copynumber: 2.1 Consensus size: 84
34049 CAATTAAACA
*
34059 AATCAACTTGTACAAATCATCTTTTACAAATCAATTAAACAATCAAAAAATAAGCAATAATTCTT
1 AATCAACTTTTACAAATCATCTTTTACAAATCAATTAAACAATCAAAAAATAAGCAATAATTCTT
34124 ATTTCCTCATCTACTATTG
66 ATTTCCTCATCTACTATTG
* *
34143 AATCGACTTTTACAAATCATCTTTTAC-AATGAATTAAACAATCAAAAAATAAGCAATAATTC-T
1 AATCAACTTTTACAAATCATCTTTTACAAATCAATTAAACAATCAAAAAATAAGCAATAATTCTT
34206 ATTTCCTCATCTACTATTG
66 ATTTCCTCATCTACTATTG
34225 AATCAACTTTT
1 AATCAACTTTT
34236 GTAGCCATAC
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
82 30 0.34
83 34 0.38
84 25 0.28
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.36
Consensus pattern (84 bp):
AATCAACTTTTACAAATCATCTTTTACAAATCAATTAAACAATCAAAAAATAAGCAATAATTCTT
ATTTCCTCATCTACTATTG
Found at i:35610 original size:42 final size:41
Alignment explanation
Indices: 35525--35647 Score: 104
Period size: 42 Copynumber: 2.9 Consensus size: 41
35515 GTGAATCGGG
* * *
35525 CTCTTGAATGGTGGGA-GGGACCTCTTCAATGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCAAGGATGACAGGGGC
* *
35567 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCAAGG-ATGACAGGGGC
* * * * * *
35609 CTCTTCAACGATAGGAGTGGACTCTTTAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTC-TCAAGGATGACAGG
35648 CGAGTCGGGC
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
41 4 0.06
42 54 0.83
43 7 0.11
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.24
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCAAGGATGACAGGGGC
Found at i:36080 original size:19 final size:19
Alignment explanation
Indices: 36024--36146 Score: 103
Period size: 19 Copynumber: 6.6 Consensus size: 19
36014 TAGTTTACTT
* *
36024 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
* **
36044 TCGCAACGTGAAAAATGACTA
1 TCGCAACGCG--AAATGAAAA
36065 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
36084 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
*
36098 TCGCAACGAGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
**
36117 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
36136 TCGCAACGCGA
1 TCGCAACGCGA
36147 TTATAGTTTC
Statistics
Matches: 82, Mismatches: 14, Indels: 15
0.74 0.13 0.14
Matches are distributed among these distances:
14 10 0.12
15 1 0.01
16 1 0.01
17 2 0.02
18 1 0.01
19 44 0.54
20 8 0.10
21 12 0.15
22 3 0.04
ACGTcount: A:0.46, C:0.24, G:0.20, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:36101 original size:14 final size:14
Alignment explanation
Indices: 36082--36108 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36072 GCGAAATGAA
36082 AATCGCAACGAGAG
1 AATCGCAACGAGAG
36096 AATCGCAACGAGA
1 AATCGCAACGAGA
36109 AATGAAAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.22, G:0.26, T:0.07
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:36165 original size:19 final size:19
Alignment explanation
Indices: 36143--36186 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
36133 AAATCGCAAC
36143 GCGATTATAGTTTCGCGTT
1 GCGATTATAGTTTCGCGTT
* *
36162 GCGATTTTGGTTTCGCGTT
1 GCGATTATAGTTTCGCGTT
*
36181 ACGATT
1 GCGATT
36187 TTGTCGTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.14, C:0.16, G:0.27, T:0.43
Consensus pattern (19 bp):
GCGATTATAGTTTCGCGTT
Found at i:36187 original size:19 final size:19
Alignment explanation
Indices: 36152--36189 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
36142 CGCGATTATA
*
36152 GTTTCGCGTTGCGATTTTG
1 GTTTCGCGTTACGATTTTG
36171 GTTTCGCGTTACGATTTTG
1 GTTTCGCGTTACGATTTTG
36190 TCGTTGCGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.08, C:0.16, G:0.29, T:0.47
Consensus pattern (19 bp):
GTTTCGCGTTACGATTTTG
Found at i:36199 original size:14 final size:14
Alignment explanation
Indices: 36177--36249 Score: 56
Period size: 14 Copynumber: 4.9 Consensus size: 14
36167 TTTGGTTTCG
* *
36177 CGTTACGATTTTGT
1 CGTTGCGATTTTAT
*
36191 CGTTGCGATTCTAT
1 CGTTGCGATTTTAT
36205 CGTTGCGATTTTCATTTCT
1 CGTTGCGATTTT-A----T
* *
36224 CGTTGCGATTCTCT
1 CGTTGCGATTTTAT
36238 CGTTGCGATTTT
1 CGTTGCGATTTT
36250 CATTTCGCGT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
14 34 0.72
15 1 0.02
19 12 0.26
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTAT
Found at i:36227 original size:33 final size:33
Alignment explanation
Indices: 36190--36266 Score: 136
Period size: 33 Copynumber: 2.3 Consensus size: 33
36180 TACGATTTTG
36190 TCGTTGCGATTCTATCGTTGCGATTTTCATTTC
1 TCGTTGCGATTCTATCGTTGCGATTTTCATTTC
*
36223 TCGTTGCGATTCTCTCGTTGCGATTTTCATTTC
1 TCGTTGCGATTCTATCGTTGCGATTTTCATTTC
*
36256 GCGTTGCGATT
1 TCGTTGCGATT
36267 TTAAGTTTCG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.10, C:0.22, G:0.21, T:0.47
Consensus pattern (33 bp):
TCGTTGCGATTCTATCGTTGCGATTTTCATTTC
Found at i:36228 original size:19 final size:19
Alignment explanation
Indices: 36204--36268 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
36194 TGCGATTCTA
36204 TCGTTGCGATTTTCATTTC
1 TCGTTGCGATTTTCATTTC
36223 TCGTTGCGA--TTC---TC
1 TCGTTGCGATTTTCATTTC
36237 TCGTTGCGATTTTCATTTC
1 TCGTTGCGATTTTCATTTC
*
36256 GCGTTGCGATTTT
1 TCGTTGCGATTTT
36269 AAGTTTCGTG
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
14 11 0.28
16 3 0.08
17 3 0.08
19 23 0.57
ACGTcount: A:0.09, C:0.22, G:0.20, T:0.49
Consensus pattern (19 bp):
TCGTTGCGATTTTCATTTC
Found at i:36233 original size:47 final size:47
Alignment explanation
Indices: 36158--36247 Score: 126
Period size: 47 Copynumber: 1.9 Consensus size: 47
36148 TATAGTTTCG
** * *
36158 CGTTGCGATTTTGGTTTCGCGTTACGATTTTGTCGTTGCGATTCTAT
1 CGTTGCGATTTTCATTTCGCGTTACGATTCTCTCGTTGCGATTCTAT
* *
36205 CGTTGCGATTTTCATTTCTCGTTGCGATTCTCTCGTTGCGATT
1 CGTTGCGATTTTCATTTCGCGTTACGATTCTCTCGTTGCGATT
36248 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 37 1.00
ACGTcount: A:0.10, C:0.20, G:0.23, T:0.47
Consensus pattern (47 bp):
CGTTGCGATTTTCATTTCGCGTTACGATTCTCTCGTTGCGATTCTAT
Found at i:36281 original size:20 final size:19
Alignment explanation
Indices: 36238--36284 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
36228 GCGATTCTCT
*
36238 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTAATTTCG
36257 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTAA-TTTCG
*
36277 TGTTGCGA
1 CGTTGCGA
36285 AAGTAAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.13, C:0.17, G:0.26, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTAATTTCG
Found at i:36544 original size:94 final size:92
Alignment explanation
Indices: 36395--36586 Score: 312
Period size: 94 Copynumber: 2.1 Consensus size: 92
36385 GAATACACAG
* * *
36395 TTTAGTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTTACTTCAACCAAAAGACAAAACAAAGACAAATACTACTTCACAGTGTTAAAGAATAAACAGTT
36460 TAGCAGAATTGACAGCAACCGAATAAA
66 TAGCAGAATTGACAGCAACCGAATAAA
*
36487 TTTACTTCAACCAAAAGACAAAGCAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAG
1 TTTACTTCAACCAAAAGACAAAAC-AAAGACAAATACT-ACTTCACAGTGTTAAAGAATAAACAG
* *
36552 TTTAGCAGTATTGGCAGCAACCGAATAAA
64 TTTAGCAGAATTGACAGCAACCGAATAAA
36581 TTTACT
1 TTTACT
36587 AAGCAATCTA
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
92 22 0.24
93 13 0.14
94 57 0.62
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (92 bp):
TTTACTTCAACCAAAAGACAAAACAAAGACAAATACTACTTCACAGTGTTAAAGAATAAACAGTT
TAGCAGAATTGACAGCAACCGAATAAA
Found at i:38505 original size:22 final size:22
Alignment explanation
Indices: 38475--38534 Score: 111
Period size: 22 Copynumber: 2.7 Consensus size: 22
38465 GGGATTTTGC
*
38475 CGGAAATGGGGACGGAAATCTT
1 CGGAGATGGGGACGGAAATCTT
38497 CGGAGATGGGGACGGAAATCTT
1 CGGAGATGGGGACGGAAATCTT
38519 CGGAGATGGGGACGGA
1 CGGAGATGGGGACGGA
38535 TTTTGCCGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.28, C:0.13, G:0.43, T:0.15
Consensus pattern (22 bp):
CGGAGATGGGGACGGAAATCTT
Found at i:38704 original size:20 final size:20
Alignment explanation
Indices: 38679--38773 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 20
38669 CTTTAAAAAT
38679 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
38699 CGCGTTGCGATTTTTACGGATA
1 CGCGTTGCGA--TTTACGGATA
* * * *
38721 CTCGTTGCGATAGTAAGAAT-
1 CGCGTTGCGAT-TTACGGATA
*** *
38741 CGCGTTGCGATTTATATATT
1 CGCGTTGCGATTTACGGATA
38761 CGCGTTGCGATTT
1 CGCGTTGCGATTT
38774 TCATATTCGC
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
19 4 0.06
20 34 0.55
21 5 0.08
22 19 0.31
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:38779 original size:20 final size:19
Alignment explanation
Indices: 38740--38874 Score: 96
Period size: 19 Copynumber: 6.8 Consensus size: 19
38730 ATAGTAAGAA
*
38740 TCGCGTTGCGATTTATATAT
1 TCGCATTGCGATTT-TATAT
*
38760 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTT-ATAT
* * * * *
38780 TCGCGTTGTGATTCTGGAAAA
1 TCGCATTGCGATT-T-TATAT
*
38801 TCGCAATGCGAATTTGTACTA-
1 TCGCATTGCG-ATTT-TA-TAT
38822 TCGCATTGCGATTTT-TATT
1 TCGCATTGCGATTTTATA-T
38841 TCGCATTGCGATTTT-TATT
1 TCGCATTGCGATTTTATA-T
38860 TCGCATTGCGATTTT
1 TCGCATTGCGATTTT
38875 GTTGGTCATC
Statistics
Matches: 98, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.02
19 36 0.37
20 34 0.35
21 22 0.22
22 4 0.04
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.44
Consensus pattern (19 bp):
TCGCATTGCGATTTTATAT
Found at i:38846 original size:19 final size:19
Alignment explanation
Indices: 38822--38874 Score: 106
Period size: 19 Copynumber: 2.8 Consensus size: 19
38812 ATTTGTACTA
38822 TCGCATTGCGATTTTTATT
1 TCGCATTGCGATTTTTATT
38841 TCGCATTGCGATTTTTATT
1 TCGCATTGCGATTTTTATT
38860 TCGCATTGCGATTTT
1 TCGCATTGCGATTTT
38875 GTTGGTCATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.51
Consensus pattern (19 bp):
TCGCATTGCGATTTTTATT
Found at i:40616 original size:2 final size:2
Alignment explanation
Indices: 40609--40637 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
40599 TTGAGGAGTT
40609 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
40638 TGGTGGGGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:46157 original size:3 final size:3
Alignment explanation
Indices: 46149--46231 Score: 85
Period size: 3 Copynumber: 26.7 Consensus size: 3
46139 TCATTTAAAT
** **
46149 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* *
46198 TTA TTA ATA TTA ATA TATA TATA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA T-TA T-TA TTA TTA TTA TT
46232 TAATAAATAT
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
3 56 0.85
4 10 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:47963 original size:17 final size:17
Alignment explanation
Indices: 47941--47978 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
47931 ATATTTTATT
47941 TATATTTTATATATAAA
1 TATATTTTATATATAAA
* *
47958 TATATTTTTTATATAAT
1 TATATTTTATATATAAA
47975 TATA
1 TATA
47979 ACTTTGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TATATTTTATATATAAA
Found at i:48479 original size:19 final size:18
Alignment explanation
Indices: 48445--48481 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
48435 TTTCTTTCAA
48445 ATTTTTTATTACTTA-TT
1 ATTTTTTATTACTTATTT
48462 ATTTTTTATT--TTATTT
1 ATTTTTTATTACTTATTT
48478 ATTT
1 ATTT
48482 ATTTTATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 3 0.16
16 6 0.32
17 10 0.53
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (18 bp):
ATTTTTTATTACTTATTT
Found at i:48484 original size:13 final size:12
Alignment explanation
Indices: 48460--48489 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
48450 TTATTACTTA
48460 TTATTTTTTATT
1 TTATTTTTTATT
48472 TTATTTATTTATT
1 TTATTT-TTTATT
48485 TTATT
1 TTATT
48490 CAAGAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (12 bp):
TTATTTTTTATT
Found at i:53129 original size:25 final size:26
Alignment explanation
Indices: 53085--53137 Score: 81
Period size: 25 Copynumber: 2.0 Consensus size: 26
53075 TATTATACTC
53085 ATCCAGCAAAGAAAGAAAAAAAGAAAA
1 ATCCAGC-AAGAAAGAAAAAAAGAAAA
*
53112 ATCCAGC-AGAAAGGAAAAAAGAAAA
1 ATCCAGCAAGAAAGAAAAAAAGAAAA
53137 A
1 A
53138 AGAGGAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 18 0.72
27 7 0.28
ACGTcount: A:0.68, C:0.11, G:0.17, T:0.04
Consensus pattern (26 bp):
ATCCAGCAAGAAAGAAAAAAAGAAAA
Found at i:53137 original size:7 final size:7
Alignment explanation
Indices: 53125--53224 Score: 69
Period size: 9 Copynumber: 13.0 Consensus size: 7
53115 CAGCAGAAAG
53125 GAAAAAA
1 GAAAAAA
53132 GAAAAAAGA
1 G-AAAAA-A
53141 GGAAAAAA
1 -GAAAAAA
53149 GGGAAAAAA
1 --GAAAAAA
53158 GAAAAAAA
1 G-AAAAAA
53166 TGAAAAAAA
1 -G-AAAAAA
53175 TGAAAGAAA
1 -GAAA-AAA
* *
53184 -TAGAAA
1 GAAAAAA
53190 GAAAAAAA
1 G-AAAAAA
53198 GAAAAAA
1 GAAAAAA
53205 GAAAAAA
1 GAAAAAA
53212 G-AAAAA
1 GAAAAAA
53218 GAAAAAA
1 GAAAAAA
53225 ATTGAATCAA
Statistics
Matches: 79, Mismatches: 4, Indels: 20
0.77 0.04 0.19
Matches are distributed among these distances:
6 9 0.11
7 22 0.28
8 20 0.25
9 27 0.34
10 1 0.01
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (7 bp):
GAAAAAA
Found at i:53138 original size:27 final size:26
Alignment explanation
Indices: 53085--53138 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
53075 TATTATACTC
*
53085 ATCCAGCAAAGAAAGAAAAAAAGAAAA
1 ATCCAGC-AAGAAAGAAAAAAAAAAAA
*
53112 ATCCAGC-AGAAAGGAAAAAAGAAAAA
1 ATCCAGCAAGAAA-GAAAAAAAAAAAA
53138 A
1 A
53139 GAGGAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.21
26 12 0.50
27 7 0.29
ACGTcount: A:0.69, C:0.11, G:0.17, T:0.04
Consensus pattern (26 bp):
ATCCAGCAAGAAAGAAAAAAAAAAAA
Found at i:53174 original size:9 final size:8
Alignment explanation
Indices: 53121--53225 Score: 78
Period size: 8 Copynumber: 13.4 Consensus size: 8
53111 AATCCAGCAG
*
53121 AAAGGAAA
1 AAAGAAAA
53129 AAAGAAAA
1 AAAGAAAA
53137 AAGAGGAAAA
1 AA-A-GAAAA
* *
53147 AAGGGAAA
1 AAAGAAAA
53155 AAAGAAAA
1 AAAGAAAA
53163 AAATGAAAA
1 AAA-GAAAA
53172 AAATG-AAA
1 AAA-GAAAA
* * *
53180 GAA-ATAG
1 AAAGAAAA
53187 AAAGAAAA
1 AAAGAAAA
53195 AAAG-AAA
1 AAAGAAAA
53202 AAAG-AAA
1 AAAGAAAA
53209 AAAG--AA
1 AAAGAAAA
53215 AAAGAAAA
1 AAAGAAAA
53223 AAA
1 AAA
53226 TTGAATCAAG
Statistics
Matches: 79, Mismatches: 11, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
6 6 0.08
7 17 0.22
8 38 0.48
9 11 0.14
10 7 0.09
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (8 bp):
AAAGAAAA
Found at i:53183 original size:22 final size:20
Alignment explanation
Indices: 53092--53225 Score: 78
Period size: 21 Copynumber: 6.2 Consensus size: 20
53082 CTCATCCAGC
53092 AAAGAAAGAAAAAAAGAAAA
1 AAAGAAAGAAAAAAAGAAAA
*
53112 ATCCAGCAGAAAGGAAAAAAGAAAA
1 A---A--AGAAAGAAAAAAAGAAAA
53137 AAGAGGAAA-AAAGGGAAAA-AAGAA
1 AA-A-GAAAGAAA---AAAAGAA-AA
*
53161 AAA-AATGAAAAAAATGAAAGA
1 AAAGAAAGAAAAAAA-GAAA-A
53182 AATAGAAAGAAAAAAAG-AAA
1 AA-AGAAAGAAAAAAAGAAAA
*
53202 AAAGAAAAAAGAAAAAGAAAA
1 AAAGAAAGAA-AAAAAGAAAA
53223 AAA
1 AAA
53226 TTGAATCAAG
Statistics
Matches: 90, Mismatches: 6, Indels: 35
0.69 0.05 0.27
Matches are distributed among these distances:
19 11 0.12
20 11 0.12
21 18 0.20
22 10 0.11
23 14 0.16
24 8 0.09
25 18 0.20
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.03
Consensus pattern (20 bp):
AAAGAAAGAAAAAAAGAAAA
Found at i:53202 original size:6 final size:6
Alignment explanation
Indices: 53177--53223 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
53167 GAAAAAAATG
*
53177 AAAGAA ATAGAA AGAA-AA AAAGAAA AAAGAAA AAAGAA AAAGAA AAA
1 AAAGAA AAAGAA A-AAGAA AAAG-AA AAAG-AA AAAGAA AAAGAA AAA
53224 AATTGAATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
5 2 0.06
6 20 0.56
7 14 0.39
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:55672 original size:114 final size:114
Alignment explanation
Indices: 55469--55694 Score: 373
Period size: 114 Copynumber: 2.0 Consensus size: 114
55459 AAGTGCCATG
*
55469 TGTTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGTTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCGGATC
* * *
55534 TGGTTTGGTATGAACCCCAAAACCAATCATT-AGATTTGAAAGATGAATT
66 TGGTTCGGTAGGAACCCCAAAACCAATCATTGA-AATTGAAAGATGAATT
55583 TGTTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCGGATC
1 TGTTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCGGATC
* * *
55648 TGGTTCGGTAGGAATCTCATAACCAATCATTGAAATTGAAAGATGAA
66 TGGTTCGGTAGGAACCCCAAAACCAATCATTGAAATTGAAAGATGAA
55695 CTGCATGATC
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
114 103 0.99
115 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (114 bp):
TGTTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCGGATC
TGGTTCGGTAGGAACCCCAAAACCAATCATTGAAATTGAAAGATGAATT
Found at i:58370 original size:22 final size:23
Alignment explanation
Indices: 58319--58374 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
58309 ATCTACACTC
* *
58319 TTCAAATATGATAGATTCTTTTT
1 TTCAAAGATGATAGATTCTTCTT
*
58342 TTTAAAGATGATAGATTC-TCTT
1 TTCAAAGATGATAGATTCTTCTT
58364 TTCAAAGATGA
1 TTCAAAGATGA
58375 AAGCTTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 13 0.45
23 16 0.55
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (23 bp):
TTCAAAGATGATAGATTCTTCTT
Found at i:59148 original size:76 final size:76
Alignment explanation
Indices: 59049--59610 Score: 975
Period size: 76 Copynumber: 7.4 Consensus size: 76
59039 CTATTTCCCA
* *
59049 CATCTGTAAGTCCCTCAGTGCATGAT-TGTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGT-TTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
59113 AAGCCTTAGGGT
65 AAGCCTTAGGGT
59125 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
59190 AGCCTTAGGGT
66 AGCCTTAGGGT
59201 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
59266 AACCTTAGGAT
66 AGCCTTAGGGT
*
59277 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTAATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
59342 AGCCTTAGGGT
66 AGCCTTAGGGT
*
59353 CATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
59418 AGCCTTAGGGT
66 AGCCTTAGGGT
*
59429 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
59494 A-CCTTCGGGT
66 AGCCTTAGGGT
* *
59504 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTAAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTT-CA
* *
59569 AAACCTTCGGGT
65 AAGCCTTAGGGT
*
59581 CATCTGTAAGCCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTT
59611 TCAACATTTT
Statistics
Matches: 466, Mismatches: 17, Indels: 5
0.95 0.03 0.01
Matches are distributed among these distances:
75 68 0.15
76 360 0.77
77 38 0.08
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:59749 original size:3 final size:3
Alignment explanation
Indices: 59741--59821 Score: 83
Period size: 3 Copynumber: 26.7 Consensus size: 3
59731 TCATTTAAAT
** * *
59741 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TAA TAA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* *
59790 TTA TTA ATA TTA ATA -TA TATA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT
59822 TAATAAATAT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
2 2 0.03
3 58 0.88
4 6 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:59762 original size:18 final size:18
Alignment explanation
Indices: 59735--59792 Score: 82
Period size: 18 Copynumber: 3.2 Consensus size: 18
59725 ATTTTTTCAT
*
59735 TTAAATTTATTATTATTA
1 TTAAAATTATTATTATTA
59753 TTAAAATTATTATTATTA
1 TTAAAATTATTATTATTA
59771 -TAATAATTATTATTATTTA
1 TTAA-AATTATTATTA-TTA
59790 TTA
1 TTA
59793 TTAATATTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
17 3 0.08
18 28 0.78
19 3 0.08
20 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAAAATTATTATTATTA
Found at i:61203 original size:3 final size:3
Alignment explanation
Indices: 61185--61248 Score: 55
Period size: 3 Copynumber: 22.0 Consensus size: 3
61175 TATTTTAATC
* *
61185 ATT ATTT ATT -TT ATT ATT ATT ATT -TT TTT ATT GTT -TT AATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT
*
61229 ATT -TC ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT
61249 TATAAATATA
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
2 7 0.14
3 39 0.76
4 5 0.10
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (3 bp):
ATT
Found at i:61241 original size:26 final size:25
Alignment explanation
Indices: 61183--61248 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 25
61173 TTTATTTTAA
61183 TCATTATTTATTTTATTATTATTATT
1 TCATTA-TTATTTTATTATTATTATT
** *
61209 TTTTTATTGTTTTA--ATTATTATT
1 TCATTATTATTTTATTATTATTATT
61232 TCATTATTATTATTATT
1 TCATTATTATT-TTATT
61249 TATAAATATA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
23 17 0.55
24 3 0.10
25 7 0.23
26 4 0.13
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.70
Consensus pattern (25 bp):
TCATTATTATTTTATTATTATTATT
Found at i:61261 original size:2 final size:2
Alignment explanation
Indices: 61249--61296 Score: 57
Period size: 2 Copynumber: 25.5 Consensus size: 2
61239 TATTATTATT
* *
61249 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA -A TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
61289 T- TA TA TA T
1 TA TA TA TA T
61297 TTATTTTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
1 3 0.08
2 36 0.92
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:61568 original size:17 final size:17
Alignment explanation
Indices: 61546--61583 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
61536 ATATTTTATT
61546 TATATTTTATATATAAA
1 TATATTTTATATATAAA
* *
61563 TATATTTTTTATATAAT
1 TATATTTTATATATAAA
61580 TATA
1 TATA
61584 ACTTTGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TATATTTTATATATAAA
Found at i:62259 original size:2 final size:2
Alignment explanation
Indices: 62252--62277 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
62242 ATGTTCTTAA
62252 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
62278 TTAAAATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:65766 original size:16 final size:16
Alignment explanation
Indices: 65745--65776 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
65735 TGTGTCGTTG
65745 GTGGAGGTTCGGTCGA
1 GTGGAGGTTCGGTCGA
*
65761 GTGGAGGTTTGGTCGA
1 GTGGAGGTTCGGTCGA
65777 CAACGGCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.09, G:0.50, T:0.28
Consensus pattern (16 bp):
GTGGAGGTTCGGTCGA
Found at i:66323 original size:23 final size:23
Alignment explanation
Indices: 66300--66381 Score: 137
Period size: 23 Copynumber: 3.6 Consensus size: 23
66290 AATATATTAG
*
66300 GTAGCGCTTATATAATGTAATAG
1 GTAGCGCTTATATAATGTAATAA
66323 GTAGCGCTTATATAATGTAATAA
1 GTAGCGCTTATATAATGTAATAA
* *
66346 GTAACGATTATATAATGTAATAA
1 GTAGCGCTTATATAATGTAATAA
66369 GTAGCGCTTATAT
1 GTAGCGCTTATAT
66382 TGACCTATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (23 bp):
GTAGCGCTTATATAATGTAATAA
Found at i:67205 original size:182 final size:182
Alignment explanation
Indices: 66892--67267 Score: 646
Period size: 182 Copynumber: 2.1 Consensus size: 182
66882 TTTACTACTG
66892 GTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACAT
1 GTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACAT
* * *
66957 TTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAGTGTCG
66 TTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAATGTCG
** *
67022 ATACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACC-
131 ATACTTATAATAAAGTATCGACACAATCAACATATCCGGTAGCGCTTTACCT
* *
67073 GATTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACTTGTTATATTGTTATGGATCGATACA
1 G-TTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACA
67138 TTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAATGTC
65 TTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAATGTC
* *
67203 GATACTTATAATAAAGTATCGAGACAATCAACATATCTGGTAGCGCTTTACCT
130 GATACTTATAATAAAGTATCGACACAATCAACATATCCGGTAGCGCTTTACCT
67256 GTTTTGTCATTT
1 GTTTTGTCATTT
67268 GTTTACCTGT
Statistics
Matches: 183, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
181 1 0.01
182 181 0.99
183 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (182 bp):
GTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACAT
TTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAATGTCG
ATACTTATAATAAAGTATCGACACAATCAACATATCCGGTAGCGCTTTACCT
Found at i:67456 original size:112 final size:112
Alignment explanation
Indices: 67256--67473 Score: 391
Period size: 112 Copynumber: 1.9 Consensus size: 112
67246 CGCTTTACCT
*
67256 GTTTTGTCATTTGTTTACCTGTTATATTGTTATGGATCGATACATTGTTATAAAGTATCGACACT
1 GTTTTGTCATTTGTTTACCTGTTATATTGTTATAGATCGATACATTGTTATAAAGTATCGACACT
* *
67321 TTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCG
66 TTCAATATATCAGGTAGCCCTTTACCTGTTTTGTCATTTATAGACCG
*
67368 GTTTTGTCATTTGTTTACCTGTTATATTGTTATAGATCGATACATTTTTATAAAGTATCGACACT
1 GTTTTGTCATTTGTTTACCTGTTATATTGTTATAGATCGATACATTGTTATAAAGTATCGACACT
*
67433 TTCAATATATCAGGTAGCCCTTTATCTGTTTTGTCATTTAT
66 TTCAATATATCAGGTAGCCCTTTACCTGTTTTGTCATTTAT
67474 CATTTTTTAC
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
112 101 1.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (112 bp):
GTTTTGTCATTTGTTTACCTGTTATATTGTTATAGATCGATACATTGTTATAAAGTATCGACACT
TTCAATATATCAGGTAGCCCTTTACCTGTTTTGTCATTTATAGACCG
Found at i:67490 original size:98 final size:99
Alignment explanation
Indices: 67374--67571 Score: 337
Period size: 98 Copynumber: 2.0 Consensus size: 99
67364 ACCGGTTTTG
67374 TCATTTGTTTACCTGTTATATTGTTATAGATCGATACATTTTTATAAAGTATCGACACTTTCAAT
1 TCATTTGTTTACCTGTTATATTGTTATAGATCGATACATTTTTATAAAGTATCGACACTTTCAAT
*
67439 ATATCAGGTAGCCCTTTA-TCTGTTTTGTCATTTA
66 ATATCAGGTAGCCCTTTACT-TGTTTTGCCATTTA
*
67473 TCATTT-TTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAAT
1 TCATTTGTTTACCTGTTATATTGTTATAGATCGATACATTTTTATAAAGTATCGACACTTTCAAT
* *
67537 ATATCCGGTAGCGCTTTACTTGTTTTGCCATTTA
66 ATATCAGGTAGCCCTTTACTTGTTTTGCCATTTA
67571 T
1 T
67572 AGACCGATTT
Statistics
Matches: 94, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
98 87 0.93
99 7 0.07
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.46
Consensus pattern (99 bp):
TCATTTGTTTACCTGTTATATTGTTATAGATCGATACATTTTTATAAAGTATCGACACTTTCAAT
ATATCAGGTAGCCCTTTACTTGTTTTGCCATTTA
Found at i:67571 original size:210 final size:211
Alignment explanation
Indices: 67262--67641 Score: 654
Period size: 210 Copynumber: 1.8 Consensus size: 211
67252 ACCTGTTTTG
67262 TCATTTGTTTACCTGTTATATTGTTATGGATCGATACATTGTTATAAAGTATCGACACTTTCAAT
1 TCATTTGTTTACCTGTTATATTGTTATGGATCGATACATTGTTATAAAGTATCGACACTTTCAAT
* *
67327 ATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTGTTTACCTGTTA
66 ATATCCGGTAGCGCTTTACCTGTTTTGCCATTTATAGACCGATTTTGTCATTTGTTTACCTGTTA
* *
67392 TATTGTTATAGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCAGGTAGCCCTTTA
131 TATTGTTATAGATCAATACATTTTTATAAAGCATCGACACTTTCAATATATCAGGTAGCCCTTTA
67457 TCTGTTTTGTCATTTA
196 TCTGTTTTGTCATTTA
*
67473 TCATTT-TTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAAT
1 TCATTTGTTTACCTGTTATATTGTTATGGATCGATACATTGTTATAAAGTATCGACACTTTCAAT
* * *
67537 ATATCCGGTAGCGCTTTACTTGTTTTGCCATTTATAGACCGATTTTGTTATTTTTTTACCTGTTA
66 ATATCCGGTAGCGCTTTACCTGTTTTGCCATTTATAGACCGATTTTGTCATTTGTTTACCTGTTA
* * *
67602 TATTGTTATGGATTAATATATTTTTATAAAGCATCGACAC
131 TATTGTTATAGATCAATACATTTTTATAAAGCATCGACAC
67642 AAACCGACAA
Statistics
Matches: 158, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
210 152 0.96
211 6 0.04
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.46
Consensus pattern (211 bp):
TCATTTGTTTACCTGTTATATTGTTATGGATCGATACATTGTTATAAAGTATCGACACTTTCAAT
ATATCCGGTAGCGCTTTACCTGTTTTGCCATTTATAGACCGATTTTGTCATTTGTTTACCTGTTA
TATTGTTATAGATCAATACATTTTTATAAAGCATCGACACTTTCAATATATCAGGTAGCCCTTTA
TCTGTTTTGTCATTTA
Found at i:75552 original size:15 final size:15
Alignment explanation
Indices: 75500--75568 Score: 68
Period size: 15 Copynumber: 4.4 Consensus size: 15
75490 ATTTTGTAGC
75500 ATTTTTATATTTAAT
1 ATTTTTATATTTAAT
* *
75515 GTATTTAATATCTTAAT
1 AT-TTTTATAT-TTAAT
*
75532 ATTTTTTATATTTTAT
1 A-TTTTTATATTTAAT
75548 ATTTTTA-ATTTAAAT
1 ATTTTTATATTT-AAT
75563 ATTTTT
1 ATTTTT
75569 TTAAAAAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
14 4 0.09
15 15 0.34
16 12 0.27
17 12 0.27
18 1 0.02
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (15 bp):
ATTTTTATATTTAAT
Found at i:75564 original size:31 final size:33
Alignment explanation
Indices: 75501--75569 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
75491 TTTTGTAGCA
* *
75501 TTTTTATATTTAATGTATTTAATATCTTAATAT
1 TTTTTATATTTAATATATTTAATATCTAAATAT
* *
75534 TTTTTATATTTTATATTTTTAAT-T-TAAATAT
1 TTTTTATATTTAATATATTTAATATCTAAATAT
75565 TTTTT
1 TTTTT
75570 TAAAAAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 11 0.34
32 1 0.03
33 20 0.62
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (33 bp):
TTTTTATATTTAATATATTTAATATCTAAATAT
Found at i:77792 original size:30 final size:32
Alignment explanation
Indices: 77756--77824 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 32
77746 GTTTATCCGA
77756 CCGAGGCCATCCGAA-AGC-ATCCGAGAGCAT
1 CCGAGGCCATCCGAACAGCTATCCGAGAGCAT
* *
77786 CCGAGGCCATCCGAACGAGCTATGCGAGGGCAT
1 CCGAGGCCATCCGAAC-AGCTATCCGAGAGCAT
77819 CCGAGG
1 CCGAGG
77825 GCAACACTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 15 0.44
32 3 0.09
33 16 0.47
ACGTcount: A:0.26, C:0.32, G:0.32, T:0.10
Consensus pattern (32 bp):
CCGAGGCCATCCGAACAGCTATCCGAGAGCAT
Found at i:77825 original size:10 final size:10
Alignment explanation
Indices: 77756--77827 Score: 54
Period size: 10 Copynumber: 6.9 Consensus size: 10
77746 GTTTATCCGA
*
77756 CCGAGGCCAT
1 CCGAGGGCAT
**
77766 CCGAAAGCAT
1 CCGAGGGCAT
*
77776 CCGAGAGCAT
1 CCGAGGGCAT
*
77786 CCGAGGCCAT
1 CCGAGGGCAT
*
77796 CCGAACGAGCTAT
1 CCG-A-GGGC-AT
*
77809 GCGAGGGCAT
1 CCGAGGGCAT
77819 CCGAGGGCA
1 CCGAGGGCA
77828 ACACTGTGTT
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
10 37 0.77
11 4 0.08
12 3 0.06
13 4 0.08
ACGTcount: A:0.26, C:0.32, G:0.32, T:0.10
Consensus pattern (10 bp):
CCGAGGGCAT
Found at i:80748 original size:2 final size:2
Alignment explanation
Indices: 80741--80768 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
80731 ATTAATGATA
80741 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
80769 CAAAACATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:84673 original size:20 final size:20
Alignment explanation
Indices: 84648--84688 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
84638 AAACATATTT
*
84648 TATTTTTACCTTAACTTAAA
1 TATTTTAACCTTAACTTAAA
* *
84668 TATTTTAATCTTATCTTAAA
1 TATTTTAACCTTAACTTAAA
84688 T
1 T
84689 TTAAAAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.54
Consensus pattern (20 bp):
TATTTTAACCTTAACTTAAA
Found at i:84724 original size:20 final size:22
Alignment explanation
Indices: 84699--84747 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
84689 TTAAAAATAT
84699 ATATTTTTATCTTA-ACTTA-A
1 ATATTTTTATCTTATACTTATA
* *
84719 ATATTTTTATTTTATTCTTATA
1 ATATTTTTATCTTATACTTATA
84741 ATATTTT
1 ATATTTT
84748 AAAATTAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 13 0.52
21 4 0.16
22 8 0.32
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (22 bp):
ATATTTTTATCTTATACTTATA
Found at i:84737 original size:26 final size:26
Alignment explanation
Indices: 84657--84738 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 26
84647 TTATTTTTAC
* *
84657 CTTAACTTAAATATTTTAATCTTA-T
1 CTTAACTTAAATATTTTTATTTTATT
* * * *
84682 CTTAAATTTAAAAATATATATTTT-TAT
1 CTT-AACTTAAATATTTTTATTTTAT-T
84709 CTTAACTTAAATATTTTTATTTTATT
1 CTTAACTTAAATATTTTTATTTTATT
84735 CTTA
1 CTTA
84739 TAATATTTTA
Statistics
Matches: 43, Mismatches: 10, Indels: 7
0.72 0.17 0.12
Matches are distributed among these distances:
25 3 0.07
26 35 0.81
27 5 0.12
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.55
Consensus pattern (26 bp):
CTTAACTTAAATATTTTTATTTTATT
Found at i:84769 original size:23 final size:24
Alignment explanation
Indices: 84741--84795 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
84731 TATTCTTATA
84741 ATATTTTAAAATTAAGAT-AAAAT
1 ATATTTTAAAATTAAGATGAAAAT
** *
84764 ATATTTTTTAGTTAAGATGAAAAT
1 ATATTTTAAAATTAAGATGAAAAT
*
84788 AAATTTTA
1 ATATTTTA
84796 TTTCTTAAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (24 bp):
ATATTTTAAAATTAAGATGAAAAT
Found at i:84833 original size:29 final size:29
Alignment explanation
Indices: 84757--84833 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 29
84747 TAAAATTAAG
* **
84757 ATAAAATATATTTTTTAGTTAAGATGAAA
1 ATAAAATATATTTTTAAACTAAGATGAAA
* * *
84786 ATAAATTTTATTTCTTAAACTAA-ATGAGA
1 ATAAAATATATTT-TTAAACTAAGATGAAA
84815 ATAAAATATATATTTTAAA
1 ATAAAATATAT-TTTTAAA
84834 ATTAAAATTA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
29 30 0.79
30 8 0.21
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.42
Consensus pattern (29 bp):
ATAAAATATATTTTTAAACTAAGATGAAA
Found at i:84896 original size:30 final size:28
Alignment explanation
Indices: 84846--85131 Score: 137
Period size: 30 Copynumber: 10.5 Consensus size: 28
84836 TAAAATTAAA
*
84846 AAGAATAT-ATATTT--TAAGTTAAAAT
1 AAGAATATAATATTTAATAAGTTAAGAT
*
84871 AAGAATAATTAATATTTAATAAGTTATGAT
1 AAGAAT-A-TAATATTTAATAAGTTAAGAT
* **
84901 AAGAATATAATATTTTTAATAACTTAATTT
1 AAGAATATAATA--TTTAATAAGTTAAGAT
84931 AAGAATATAATATATGTAATAAGTTAAGAT
1 AAGAATATAATAT-T-TAATAAGTTAAGAT
* * **
84961 AAAAATAAAATATATTTTTAA---AA-ATT
1 AAGAATATAATAT-TTAATAAGTTAAGA-T
*
84987 AAG-ATATTAA-A---AATTAAGATAAGAGT
1 AAGAATA-TAATATTTAA-TAAGTTAAGA-T
*
85013 AA-AATAT-AT-TTT-TTAAGTTAAGAT
1 AAGAATATAATATTTAATAAGTTAAGAT
* **
85037 AAGAATAAAATATATTTTTAAGTTAAGAT
1 AAGAATATAATAT-TTAATAAGTTAAGAT
*
85066 AAGAATAT-AT-TTT--T-AGTTAAAAT
1 AAGAATATAATATTTAATAAGTTAAGAT
*
85089 AAGAATAAAATAAATTTAATAAGTTAAGAT
1 AAGAATATAAT--ATTTAATAAGTTAAGAT
* *
85119 AAAAATAAAATAT
1 AAGAATATAATAT
85132 ATATTTTAAT
Statistics
Matches: 202, Mismatches: 26, Indels: 63
0.69 0.09 0.22
Matches are distributed among these distances:
22 3 0.01
23 15 0.07
24 7 0.03
25 27 0.13
26 19 0.09
27 6 0.03
28 18 0.09
29 26 0.13
30 81 0.40
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.37
Consensus pattern (28 bp):
AAGAATATAATATTTAATAAGTTAAGAT
Found at i:84998 original size:15 final size:15
Alignment explanation
Indices: 84978--85007 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
84968 AAATATATTT
84978 TTAAAAATTAAGATA
1 TTAAAAATTAAGATA
84993 TTAAAAATTAAGATA
1 TTAAAAATTAAGATA
85008 AGAGTAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (15 bp):
TTAAAAATTAAGATA
Found at i:85063 original size:24 final size:25
Alignment explanation
Indices: 85030--85095 Score: 95
Period size: 24 Copynumber: 2.8 Consensus size: 25
85020 ATTTTTTAAG
*
85030 TTAAGATAAGAATAA-AATATATTT
1 TTAAGTTAAGAATAAGAATATATTT
85054 TTAAGTTAAG-ATAAGAATATATTT
1 TTAAGTTAAGAATAAGAATATATTT
85078 TT-AGTTAA-AATAAGAATA
1 TTAAGTTAAGAATAAGAATA
85096 AAATAAATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
23 19 0.49
24 20 0.51
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.38
Consensus pattern (25 bp):
TTAAGTTAAGAATAAGAATATATTT
Found at i:85078 original size:23 final size:24
Alignment explanation
Indices: 85000--85095 Score: 97
Period size: 29 Copynumber: 3.8 Consensus size: 24
84990 ATATTAAAAA
*
85000 TTAAGATAAGAGTAA-AATATATTTT
1 TTAAGTTAAGA-TAAGAATATA-TTT
85025 TTAAGTTAAGATAAGAATAAAATATATTT
1 TTAAGTTAAGATAAG-----AATATATTT
85054 TTAAGTTAAGATAAGAATATATTT
1 TTAAGTTAAGATAAGAATATATTT
*
85078 TT-AGTTAAAATAAGAATA
1 TTAAGTTAAGATAAGAATA
85096 AAATAAATTT
Statistics
Matches: 63, Mismatches: 2, Indels: 14
0.80 0.03 0.18
Matches are distributed among these distances:
23 15 0.24
24 14 0.22
25 10 0.16
29 18 0.29
30 6 0.10
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (24 bp):
TTAAGTTAAGATAAGAATATATTT
Found at i:85113 original size:82 final size:78
Alignment explanation
Indices: 84930--85141 Score: 241
Period size: 82 Copynumber: 2.7 Consensus size: 78
84920 TAACTTAATT
* *
84930 TAAGAATATAATATATGTAATAAGTTAAGATAAAAATAAAATATATTTTTAA--AA-ATTAAGAT
1 TAAGAATAAAATATATTTAATAAGTTAAGATAAAAATAAAATATATTTTTAATTAAGA-TAAGAT
*
84992 ATTAAAAATTAAGA
65 ATTAAAAATTAAAA
* ** *
85006 TAAGAGTAAAATATATTTTTTAAGTTAAGATAAGAATAAAATATATTTTTAAGTTAAGATAAGAA
1 TAAGAATAAAATATATTTAATAAGTTAAGATAAAAATAAAATATATTTTTAA-TTAAGATAAG--
*** *
85071 TATATTTTTAGTTAAAA
63 -ATATTAAAAATTAAAA
*
85088 TAAGAATAAAATAAATTTAATAAGTTAAGATAAAAATAAAATATATATTTTAAT
1 TAAGAATAAAATATATTTAATAAGTTAAGATAAAAATAAAATATAT-TTTTAAT
85142 ATTAAGATGC
Statistics
Matches: 112, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
76 46 0.41
79 6 0.05
80 1 0.01
82 53 0.47
83 6 0.05
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (78 bp):
TAAGAATAAAATATATTTAATAAGTTAAGATAAAAATAAAATATATTTTTAATTAAGATAAGATA
TTAAAAATTAAAA
Found at i:85117 original size:158 final size:162
Alignment explanation
Indices: 84849--85149 Score: 400
Period size: 158 Copynumber: 1.9 Consensus size: 162
84839 AATTAAAAAG
*
84849 AATATATATTTTAAGTTAAAATAAGAATAATTAATATTTAATAAGTTATGATAAGAATATAATAT
1 AATATATATTTTAAGTTAAAATAAGAATAA-TAATATTTAATAAGTTAAGATAAGAATATAATAT
* *
84914 TTTTAATAACTTAATTTAAGAATATAATATATGTAATAAGTTAAGATAAAAATAAAATATAT-TT
65 TTTTAATAA--TAA-TTAAGAATAAAATAAATGTAATAAGTTAAGATAAAAATAAAATATATATT
84978 TTAAAAATTAAGATATTAAAAATTAAGATAAGAGTAA
127 TT-AAAATTAAGATATTAAAAATTAAGATAAGAGTAA
* * **
85015 AATATATTTTTTAAGTTAAGATAAGAATAA-AATATATTTTTAAGTTAAGATAAG-A-AT-ATAT
1 AATATATATTTTAAGTTAAAATAAGAATAATAATAT-TTAATAAGTTAAGATAAGAATATAATAT
* *
85076 TTTTAGTTAA-AA-TAAGAATAAAATAAATTTAATAAGTTAAGATAAAAATAAAATATATATTTT
65 TTTTA-ATAATAATTAAGAATAAAATAAATGTAATAAGTTAAGATAAAAATAAAATATATATTTT
*
85139 AATATTAAGAT
129 AAAATTAAGAT
85150 GCGAATTTAA
Statistics
Matches: 122, Mismatches: 10, Indels: 14
0.84 0.07 0.10
Matches are distributed among these distances:
158 53 0.43
159 4 0.03
160 2 0.02
162 9 0.07
163 5 0.04
164 6 0.05
165 15 0.12
166 28 0.23
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (162 bp):
AATATATATTTTAAGTTAAAATAAGAATAATAATATTTAATAAGTTAAGATAAGAATATAATATT
TTTAATAATAATTAAGAATAAAATAAATGTAATAAGTTAAGATAAAAATAAAATATATATTTTAA
AATTAAGATATTAAAAATTAAGATAAGAGTAA
Found at i:85808 original size:31 final size:31
Alignment explanation
Indices: 85742--85808 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
85732 AACATGTTAG
* * *
85742 TCACTAATGTTATCTATTTGTAACAAAATTT
1 TCACTAACGTTATCTATTTATAACAAAATTA
85773 TCACTAACGTTAT-TGATTTATAAC-AAATTAA
1 TCACTAACGTTATCT-ATTTATAACAAAATT-A
85804 TCACT
1 TCACT
85809 CAACATTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 6 0.19
31 25 0.81
ACGTcount: A:0.37, C:0.15, G:0.06, T:0.42
Consensus pattern (31 bp):
TCACTAACGTTATCTATTTATAACAAAATTA
Found at i:86196 original size:24 final size:24
Alignment explanation
Indices: 86169--86221 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
86159 CTGGCGGTCC
*
86169 GTGACATTAGCGTCGAATGTCTTA
1 GTGACATTAGCGTCGAATATCTTA
86193 GTGACATTAGCGTCGAATATCTTA
1 GTGACATTAGCGTCGAATATCTTA
86217 GTGAC
1 GTGAC
86222 CAATTTGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (24 bp):
GTGACATTAGCGTCGAATATCTTA
Found at i:91150 original size:20 final size:22
Alignment explanation
Indices: 91125--91169 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
91115 ATTAAAAAAT
91125 AAAAAAAT-TATTTATTTAC-A
1 AAAAAAATCTATTTATTTACTA
*
91145 AAAAAAATCTATTTTTTTACTA
1 AAAAAAATCTATTTATTTACTA
91167 AAA
1 AAA
91170 TTATAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.36
21 10 0.45
22 4 0.18
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAAAAATCTATTTATTTACTA
Found at i:92210 original size:23 final size:23
Alignment explanation
Indices: 92184--92233 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
92174 TTTGACATGC
* *
92184 TTCTTTGCATTTATGACGCGTTT
1 TTCTCTGCATTTATGACACGTTT
* * *
92207 TTCTCTGCCTTTGTGGCACGTTT
1 TTCTCTGCATTTATGACACGTTT
92230 TTCT
1 TTCT
92234 GTCTATTGTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.08, C:0.22, G:0.18, T:0.52
Consensus pattern (23 bp):
TTCTCTGCATTTATGACACGTTT
Found at i:130883 original size:26 final size:23
Alignment explanation
Indices: 130830--130892 Score: 126
Period size: 23 Copynumber: 2.7 Consensus size: 23
130820 AATAGACTAT
130830 GTAATAATAAGTTGATCAGCTAA
1 GTAATAATAAGTTGATCAGCTAA
130853 GTAATAATAAGTTGATCAGCTAA
1 GTAATAATAAGTTGATCAGCTAA
130876 GTAATAATAAGTTGATC
1 GTAATAATAAGTTGATC
130893 GAAATTTACC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.43, C:0.08, G:0.17, T:0.32
Consensus pattern (23 bp):
GTAATAATAAGTTGATCAGCTAA
Found at i:132027 original size:175 final size:179
Alignment explanation
Indices: 131802--132155 Score: 526
Period size: 175 Copynumber: 2.0 Consensus size: 179
131792 TAAATTTTAA
* *
131802 ATATATATATAACATATGAGCTCAACCCAAATCATTTAAAACCCAATTAATAATTTAAGATC-CA
1 ATATATATATAACATATGAGCTCAACCCAAACCATTTAAAACCCAATTAATAATTTAAGATCTAA
**
131866 TAACTTTTAAACTTAAATCAATATTAATTAATTAAAAA-ATTATATAATTTTTTTA-TTTATAA-
66 TAACTTTTAAACTTAAATCAATATTAATTAATTAAAAATATTATATAAAATTTTTATTTTATAAT
*
131928 T-TATATTATTTAAATTAATTGTAAACTGTTTTTT-AATTAAAAAATATT
131 TATATATTATTTAAATTAATTAT-AACTGTTTTTTGAATTAAAAAATATT
*
131976 ATATATATTATATA-ATATGGGCT-AAGCCCAAACCATTTAAAACCCAATTAATAATTTAAGATC
1 ATATATA-TATA-ACATATGAGCTCAA-CCCAAACCATTTAAAACCCAATTAATAATTTAAGATC
* *
132039 TAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAATTTTATCTAAAATTTTTATTTTAT
63 TAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAATATTATATAAAATTTTTATTTTAT
* *
132104 AATTATATATTATTTAAATTAATTATAATTTTTTTTTGAATTAAAAAATATT
128 AATTATATATTATTTAAATTAATTATAACTGTTTTTTGAATTAAAAAATATT
132156 TAATTTTTAT
Statistics
Matches: 161, Mismatches: 10, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
174 9 0.06
175 48 0.30
176 40 0.25
177 13 0.08
178 7 0.04
179 10 0.06
180 34 0.21
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (179 bp):
ATATATATATAACATATGAGCTCAACCCAAACCATTTAAAACCCAATTAATAATTTAAGATCTAA
TAACTTTTAAACTTAAATCAATATTAATTAATTAAAAATATTATATAAAATTTTTATTTTATAAT
TATATATTATTTAAATTAATTATAACTGTTTTTTGAATTAAAAAATATT
Found at i:132159 original size:27 final size:26
Alignment explanation
Indices: 132124--132182 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
132114 TATTTAAATT
* * *
132124 AATTATAATTTTTTTTTGAATTAAAAA
1 AATT-TAATTTTTATATAAATTAAAAA
132151 ATATTTAATTTTTATATAAATTAAAAA
1 A-ATTTAATTTTTATATAAATTAAAAA
132178 AATTT
1 AATTT
132183 TAAAAAAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 4 0.14
27 21 0.75
28 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (26 bp):
AATTTAATTTTTATATAAATTAAAAA
Found at i:134358 original size:13 final size:13
Alignment explanation
Indices: 134337--134366 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
134327 ATACAGTAAG
*
134337 CCTTTGGTTCAAC
1 CCTTCGGTTCAAC
134350 CCTTCGGTTCAAC
1 CCTTCGGTTCAAC
134363 CCTT
1 CCTT
134367 AAACTTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.37, G:0.13, T:0.37
Consensus pattern (13 bp):
CCTTCGGTTCAAC
Found at i:139419 original size:31 final size:31
Alignment explanation
Indices: 139381--139443 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
139371 TTAAAAAACA
139381 TAAGATATAATCACTTTCATTTTTATTTAAT
1 TAAGATATAATCACTTTCATTTTTATTTAAT
** *
139412 TAAGATATTGTCACTTTCGTTTTTATTTAAT
1 TAAGATATAATCACTTTCATTTTTATTTAAT
139443 T
1 T
139444 GAGGCGTGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.30, C:0.10, G:0.06, T:0.54
Consensus pattern (31 bp):
TAAGATATAATCACTTTCATTTTTATTTAAT
Found at i:160039 original size:60 final size:58
Alignment explanation
Indices: 159868--160042 Score: 154
Period size: 60 Copynumber: 2.9 Consensus size: 58
159858 TTTATGGCTC
* * * * *
159868 TCATTTTAAATTGGTTCTTAAACTTTTAAACATTTTAATTTCATCCTTAAACTATGACTA
1 TCATTCTAAATTGGTTCTTAAACTTTTGAATA-TTTAATTTCATCC-TAAATTATAACTA
* * * * * * * *
159928 TCATTTTAAATTAGTCCTGAAACTTTTGAATATTTTATTGTCCTCCCAAATTGTAATCT-
1 TCATTCTAAATTGGTTCTTAAACTTTTGAATATTTAATT-TCATCCTAAATTATAA-CTA
* *
159987 TTATTCTAAATTGGTTCTTAAACTTTTTGAATATTTCAATTTTATCCTAAATTATA
1 TCATTCTAAATTGGTTCTTAAAC-TTTTGAATATTT-AATTTCATCCTAAATTATA
160043 TGTATTTATT
Statistics
Matches: 90, Mismatches: 21, Indels: 8
0.76 0.18 0.07
Matches are distributed among these distances:
59 30 0.33
60 57 0.63
61 3 0.03
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.48
Consensus pattern (58 bp):
TCATTCTAAATTGGTTCTTAAACTTTTGAATATTTAATTTCATCCTAAATTATAACTA
Found at i:165712 original size:18 final size:17
Alignment explanation
Indices: 165686--165727 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
165676 TTTAATCTCA
*
165686 AAATTTTATTTATTTTT
1 AAATATTATTTATTTTT
165703 ATAATATTATTTATTTTT
1 A-AATATTATTTATTTTT
165721 AAATATT
1 AAATATT
165728 TTAAATGGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
AAATATTATTTATTTTT
Found at i:167071 original size:2 final size:2
Alignment explanation
Indices: 167064--167101 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
167054 TTTAAAATTA
*
167064 AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
167102 TAATGGACTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:180361 original size:14 final size:14
Alignment explanation
Indices: 180342--180391 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
180332 ATAGCTCGGA
180342 TAAATAATTTTATT
1 TAAATAATTTTATT
*
180356 TAAATAATATTTATCA
1 TAAATAAT-TTTAT-T
180372 TACAA-AATTTTATT
1 TA-AATAATTTTATT
180386 TAAATA
1 TAAATA
180392 TATTAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 2 0.07
14 11 0.37
15 10 0.33
16 5 0.17
17 2 0.07
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (14 bp):
TAAATAATTTTATT
Found at i:180860 original size:21 final size:21
Alignment explanation
Indices: 180836--180887 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
180826 ATATGTTATC
*
180836 TAAAATATTTAATATTTTTAA
1 TAAAATATTTAATATTTATAA
* *
180857 TAAAA-ATAATAATATTTATGA
1 TAAAATAT-TTAATATTTATAA
180878 TAAAAATATT
1 T-AAAATATT
180888 ATACGTTATC
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
20 2 0.08
21 16 0.67
22 4 0.17
23 2 0.08
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TAAAATATTTAATATTTATAA
Found at i:184852 original size:248 final size:244
Alignment explanation
Indices: 184386--184877 Score: 948
Period size: 248 Copynumber: 2.0 Consensus size: 244
184376 GACCGTCTGA
184386 AGAAGGCAGAAGTGGTGTGGTCTAGTAGTAGTGTGAATTGCATAGAGTGGTCCTAGTGGGTTTTG
1 AGAAGGCAGAAGTGGTGTGGTCTAGTAGTAGTGTGAATTGCATAGAGTGGTCCTAGTGGGTTTTG
184451 GCTATAATCCTTTGGTACATAAGTGGAGATAGGCCTGAATCTCGTCTACTCTGTGGTCATAACAC
66 GCTATAATCCTTTGGTACATAAGTGGAGATAGGCCTGAATCTCGTCTACTCTGTGGTCATAACAC
184516 ACTTTATTTCATGACTGCAACAGAAAGAAAAGCAGGTTAGTTTCATCTCAATGTGAAACAGAGTC
131 ACTTTATTTCATGACTGCAACAGAAAGAAAAGCAGGTTAGTTTCATCTCAATGTGAAACAGAGTC
184581 AAAAGTTTCTGCCCTTCCGGTGTATTTGATGTTACCTTCAAATGTGGGT
196 AAAAGTTTCTGCCCTTCCGGTGTATTTGATGTTACCTTCAAATGTGGGT
184630 AGAAGGCAGAAGTGGTGTGGTCTAGTAGTAGTGTGAATTGCATAGAGTGGTCCTAGTGGGTTTTG
1 AGAAGGCAGAAGTGGTGTGGTCTAGTAGTAGTGTGAATTGCATAGAGTGGTCCTAGTGGGTTTTG
184695 GCTATAATCCTTTGGTACATAAGTGGAGATAGGGCCTGAATCTCGTCTACTCTGTGGCTATCATA
66 GCTATAATCCTTTGGTACATAAGTGGAGATA-GGCCTGAATCTCGTCTACTCTGTGG---TCATA
184760 ACACACTTTATTTCATGACTGCAACAGAAAGAAAAGCAGGTTAGTTTCATCTCAATGTGAAACAG
127 ACACACTTTATTTCATGACTGCAACAGAAAGAAAAGCAGGTTAGTTTCATCTCAATGTGAAACAG
184825 AGTCAAAAGTTTCTGCCCTTCCGGTGTATTTGATGTTACCTTCAAATGTGGGT
192 AGTCAAAAGTTTCTGCCCTTCCGGTGTATTTGATGTTACCTTCAAATGTGGGT
184878 TGAATAATGT
Statistics
Matches: 244, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
244 96 0.39
245 25 0.10
248 123 0.50
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (244 bp):
AGAAGGCAGAAGTGGTGTGGTCTAGTAGTAGTGTGAATTGCATAGAGTGGTCCTAGTGGGTTTTG
GCTATAATCCTTTGGTACATAAGTGGAGATAGGCCTGAATCTCGTCTACTCTGTGGTCATAACAC
ACTTTATTTCATGACTGCAACAGAAAGAAAAGCAGGTTAGTTTCATCTCAATGTGAAACAGAGTC
AAAAGTTTCTGCCCTTCCGGTGTATTTGATGTTACCTTCAAATGTGGGT
Found at i:185437 original size:23 final size:23
Alignment explanation
Indices: 185407--185453 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
185397 TGCCTCTCTT
185407 TCCTCATAATTGGTGAATTGTAA
1 TCCTCATAATTGGTGAATTGTAA
185430 TCCTCATAATTGGTGAATTGTAA
1 TCCTCATAATTGGTGAATTGTAA
185453 T
1 T
185454 TAGGGATGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (23 bp):
TCCTCATAATTGGTGAATTGTAA
Found at i:189871 original size:127 final size:127
Alignment explanation
Indices: 189645--190040 Score: 576
Period size: 127 Copynumber: 3.1 Consensus size: 127
189635 GTACTATTCA
* *
189645 CGTGAAGGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAGATAATATGTTATCATTGCCC
1 CGTGAAGGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATATTATCATTGCCC
* * ** * *
189710 TATTATGCCACTTATATCCCTTGGGAACTATTCATGTCAATACTTATTATTTCTTAGGGGAT
66 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACATATTATTTCTTAGGGGAC
* * * *
189772 CGTGAAGGCGTGTTCCCGGGGGCGTGCCTTCTATTATTTTGTCAGAGAATATATTATCATTGCCC
1 CGTGAAGGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATATTATCATTGCCC
* * *
189837 TATTGTGTCACTTATGTCCCCCGAGAACTATTCATGTCAATACATATTATTTCTTAGAGGAC
66 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACATATTATTTCTTAGGGGAC
* * * *
189899 CGTGAAGGCACGTTCCTGGGGGCGCGTCTTCCATTATTTTGTCAAAGAATATATTATCATTACCC
1 CGTGAAGGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATATTATCATTGCCC
* * *
189964 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTACTCCTTAGGGGAC
66 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACATATTATTTCTTAGGGGAC
* *
190026 CATGAAGACGCGTTC
1 CGTGAAGGCGCGTTC
190041 TCGGGGTGAT
Statistics
Matches: 237, Mismatches: 32, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
127 237 1.00
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (127 bp):
CGTGAAGGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATATTATCATTGCCC
TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACATATTATTTCTTAGGGGAC
Found at i:191359 original size:127 final size:126
Alignment explanation
Indices: 191125--192768 Score: 2483
Period size: 127 Copynumber: 13.0 Consensus size: 126
191115 GCATGTATCA
* *
191125 CGGGGGCACGCCTTCCATTATTTAT-TCAGAGAATATGTTATTATTGCCCTATTATGTCACTTAT
1 CGGGGGCGCGCCTTCCATTATTT-TGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTAT
*
191189 GTCCCCCGGAAACTATTCATGTCAATACCTATTATTCCTTAGGGGACAGTGAAGGCGCGTTCC
65 GT-CCCCGGAAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCC
*
191252 CGTGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATG
1 CGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATG
191317 TCCCCTGGAAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCC
66 TCCCC-GGAAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCC
*
191379 CGGGGGCGCGCCTTCCATTATTTTGTTAGAGAATATGTTA-CAATTGCCCTATTATGTCACTTAT
1 CGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATC-ATTGCCCTATTATGTCACTTAT
* * * * *
191443 ATCCCCCGAGAACTATTCATATCAATACTTATTATTCCTTAGAGGACCGTGAAGGCGCGTTCC
65 GTCCCCGGA-AACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCC
*
191506 CGGGGGCACGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATG
1 CGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATG
* * * * *
191571 TCCCCCGGGAACTATCCATGTCAATACCTATTATTCCTTAGGGGACCATGAATGCGCATTCC
66 T-CCCCGGAAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCC
*
191633 CGGGGGCGCGCCTTCCATTATTTTGTCAAAGAATATGTTA-CAATTGCCCTATTATGTCACTTAT
1 CGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATC-ATTGCCCTATTATGTCACTTAT
* * *
191697 GTCCCC-GAGAACTATT-ATGTC-A-ACTTATTATTCCTTAGAGGACCGTGAAGGCGAGTTCC
65 GTCCCCGGA-AACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCC
*
191756 CTGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTG-CCTATTATGTCACTTATG
1 CGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATG
*
191820 TCCCCCAGAAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCC
66 T-CCCCGGAAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCC
* *
191882 C-GGGGTGCGCCTTCTATT-TTTTGTCAGAGAATATGTTA-CAATTGCCCTATTATGTCACTTAT
1 CGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATC-ATTGCCCTATTATGTCACTTAT
* * *
191944 GTCCCCCGAGAACTATTCATGTCAATACTTATTATTCCTTAGAGGACCGTGAAGGCGCGTTCC
65 GTCCCCGGA-AACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCC
*
192007 CGGGGGCACGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATG
1 CGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATG
* * *
192072 TCCCCCAGG-AACTATCCATGTCAATACCTATTATTCCTTAGGGGACCGTGAATGCGCATTCC
66 T-CCCC-GGAAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCC
192134 CGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTA-CAATTGCCCTATTATGTCACTTAT
1 CGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATC-ATTGCCCTATTATGTCACTTAT
* * * * *
192198 GTCCCCCGAGAACTATTTATGTCAATACTTATTATTCCTTAGAGGACCGTGAAGGCGAGTTCC
65 GTCCCCGGA-AACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCC
*
192261 CGGGGGCACGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATG
1 CGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATG
**
192326 TCCCCCATAAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCC
66 T-CCCCGGAAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCC
*
192388 CGGGGGCGCGCCTTCTATTATTTTGTCAGAGAATATGTTA-CAATTGCCCTATTATGTCACTTAT
1 CGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATC-ATTGCCCTATTATGTCACTTAT
* * * * *
192452 GTCCCCCGAGAACTATTTATGTCAATACTTATTATTCCTTAGAGGACCGTGAAGGCGAGTTCC
65 GTCCCCGGA-AACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCC
192515 CGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATG
1 CGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATG
* *
192580 TCCCCCGGGAACTATCCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCC
66 T-CCCCGGAAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCC
* ** *
192642 C-GGGGAGCATCTTCTATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATG
1 CGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATG
* * * * * *
192706 TCCCCTGGGAACTATTCATGTCAATACCTACTATTTCTTAGGGGA-CTTTAAAGCGCGTTCC
66 TCCCC-GGAAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCC
192767 CG
1 CG
192769 CGGAACTATA
Statistics
Matches: 1390, Mismatches: 94, Indels: 67
0.90 0.06 0.04
Matches are distributed among these distances:
122 19 0.01
123 85 0.06
124 39 0.03
125 112 0.08
126 175 0.13
127 936 0.67
128 23 0.02
129 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (126 bp):
CGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATG
TCCCCGGAAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCC
Found at i:193093 original size:34 final size:34
Alignment explanation
Indices: 193016--193124 Score: 121
Period size: 34 Copynumber: 3.1 Consensus size: 34
193006 ATTAGTTGAA
* * *
193016 TTTAATGTTAAATTT-GAATACTATAATATTTTAT
1 TTTAATTTTAAATTTCGAATAATATAAT-TTGTAT
* * *
193050 ATTTAAATTTTGAATTTTGAATAATATTATTTGTAT
1 -TTT-AATTTTAAATTTCGAATAATATAATTTGTAT
*
193086 TTTAATTTTAAATTTCGAATACTATAATTTGTAT
1 TTTAATTTTAAATTTCGAATAATATAATTTGTAT
193120 TTTAA
1 TTTAA
193125 AAACATTTAA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
34 32 0.51
35 6 0.10
36 15 0.24
37 10 0.16
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (34 bp):
TTTAATTTTAAATTTCGAATAATATAATTTGTAT
Found at i:193553 original size:21 final size:21
Alignment explanation
Indices: 193502--193553 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
193492 TATGGTATAA
*
193502 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
193523 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
193544 AACCCTGCGG
1 AACCCTGCGG
193554 AGATGACATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 3 0.11
21 22 0.79
22 3 0.11
ACGTcount: A:0.21, C:0.27, G:0.35, T:0.17
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:193592 original size:42 final size:42
Alignment explanation
Indices: 193546--193637 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 42
193536 AGGAATGTAA
* *
193546 CCCTGCGGAGATGACATATGAACTGGTGGGCTTGGCATATAC
1 CCCTGCGGAGATGACATATGAACTGGAGGGCTGGGCATATAC
* * * * * * *
193588 CCCTGAGAATATGGCATCTGAAGTGGAGGGCTGGGCATGTAC
1 CCCTGCGGAGATGACATATGAACTGGAGGGCTGGGCATATAC
193630 CCCTGCGG
1 CCCTGCGG
193638 CATCGGTAGA
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.22, C:0.23, G:0.34, T:0.22
Consensus pattern (42 bp):
CCCTGCGGAGATGACATATGAACTGGAGGGCTGGGCATATAC
Found at i:195358 original size:17 final size:16
Alignment explanation
Indices: 195336--195455 Score: 57
Period size: 16 Copynumber: 7.2 Consensus size: 16
195326 TAGCAAAAAA
*
195336 TAAATAATTAATTAATT
1 TAAATAAATAA-TAATT
195353 TAAATAAATAATAA-T
1 TAAATAAATAATAATT
* *
195368 TATATAAAT-ATTATT
1 TAAATAAATAATAATT
* *
195383 CT-AATAAAAAATTATT
1 -TAAATAAATAATAATT
* *
195399 TATATAATTATATTAATAT
1 TAAATAA--ATAATAAT-T
* *
195418 AAAATATAATAACTATTT
1 TAAATA-AATAA-TAATT
* *
195436 TAAAAAAATACTAATT
1 TAAATAAATAATAATT
195452 TAAA
1 TAAA
195456 AATAAATTTC
Statistics
Matches: 77, Mismatches: 17, Indels: 19
0.68 0.15 0.17
Matches are distributed among these distances:
14 3 0.04
15 16 0.21
16 22 0.29
17 14 0.18
18 13 0.17
19 8 0.10
20 1 0.01
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAATAAATAATAATT
Found at i:195359 original size:21 final size:19
Alignment explanation
Indices: 195333--195377 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 19
195323 AATTAGCAAA
*
195333 AAATAAATAATTAATTAATTT
1 AAATAAATAA-TAATT-ATAT
195354 AAATAAATAATAATTATAT
1 AAATAAATAATAATTATAT
195373 AAATA
1 AAATA
195378 TTATTCTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.35
20 5 0.22
21 10 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATAAATAATAATTATAT
Found at i:195438 original size:24 final size:23
Alignment explanation
Indices: 195402--195450 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
195392 AATTATTTAT
*
195402 ATAATTATATTAATATAAAATA-TA
1 ATAACTATATTAA-A-AAAATACTA
*
195426 ATAACTATTTTAAAAAAATACTA
1 ATAACTATATTAAAAAAATACTA
195449 AT
1 AT
195451 TTAAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 6 0.27
23 5 0.23
24 11 0.50
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (23 bp):
ATAACTATATTAAAAAAATACTA
Found at i:212877 original size:44 final size:45
Alignment explanation
Indices: 212814--212936 Score: 176
Period size: 44 Copynumber: 2.6 Consensus size: 45
212804 ACGGTTACGG
212814 ATTCGGCTTTGAATATAGCATTCTTTATAGAATTTATTCAC-AGA
1 ATTCGGCTTTGAATATAGCATTCTTTATAGAATTTATTCACTAGA
212858 ATTCGGCTTTGAATATAGCATTCTTTATAGAATTTATTCACGTTGATAAGA
1 ATTCGGCTTTGAATATAGCATTCTTTATAGAATTTATTCAC-----T-AGA
*
212909 ATTTGGCTTTGAATATAGCATTCTTTAT
1 ATTCGGCTTTGAATATAGCATTCTTTAT
212937 TTTATGTATT
Statistics
Matches: 71, Mismatches: 1, Indels: 7
0.90 0.01 0.09
Matches are distributed among these distances:
44 41 0.58
51 30 0.42
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.43
Consensus pattern (45 bp):
ATTCGGCTTTGAATATAGCATTCTTTATAGAATTTATTCACTAGA
Found at i:212963 original size:51 final size:51
Alignment explanation
Indices: 212855--212955 Score: 157
Period size: 51 Copynumber: 2.0 Consensus size: 51
212845 ATTTATTCAC
* *
212855 AGAATTCGGCTTTGAATATAGCATTCTTTATAGAATTTATTCACGTTGATA
1 AGAATTTGGCTTTGAATATAGCATTCTTTATAGAATGTATTCACGTTGATA
***
212906 AGAATTTGGCTTTGAATATAGCATTCTTTATTTTATGTATTCACGTTGAT
1 AGAATTTGGCTTTGAATATAGCATTCTTTATAGAATGTATTCACGTTGAT
212956 GCGAATTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.45
Consensus pattern (51 bp):
AGAATTTGGCTTTGAATATAGCATTCTTTATAGAATGTATTCACGTTGATA
Found at i:225800 original size:26 final size:25
Alignment explanation
Indices: 225732--225794 Score: 101
Period size: 25 Copynumber: 2.5 Consensus size: 25
225722 ATATTTTTTA
225732 ATAATCTTTTA-ACAATAAATATCGT
1 ATAAT-TTTTATACAATAAATATCGT
225757 ATAATTTTTATACAATAAATATCGT
1 ATAATTTTTATACAATAAATATCGT
225782 ATACATTTTTATA
1 ATA-ATTTTTATA
225795 TTATAACCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
24 5 0.14
25 22 0.61
26 9 0.25
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (25 bp):
ATAATTTTTATACAATAAATATCGT
Found at i:230196 original size:21 final size:21
Alignment explanation
Indices: 230177--230247 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
230167 ATCGTAATGT
*
230177 GAATTTGAACTATCGCAATGC
1 GAATTTGAACTATCGCAACGC
* * * *
230198 GAAATGGAA-AATCGCAACGT
1 GAATTTGAACTATCGCAACGC
*
230218 AAATTT-AGACTATCGCAACGC
1 GAATTTGA-ACTATCGCAACGC
230239 GAATTTGAA
1 GAATTTGAA
230248 AACTGAGTTG
Statistics
Matches: 36, Mismatches: 11, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
19 1 0.03
20 12 0.33
21 22 0.61
22 1 0.03
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (21 bp):
GAATTTGAACTATCGCAACGC
Found at i:231771 original size:167 final size:168
Alignment explanation
Indices: 231477--231808 Score: 612
Period size: 167 Copynumber: 2.0 Consensus size: 168
231467 GTTGAAAATA
231477 TCAGAAATGGTTGTAGGTTAAATGCTAGTACATGCTAAGATTCAATGCTTAGAAATGTCAACAAC
1 TCAGAAATGGTTGTAGGTTAAATGCTAGTACATGCTAAGATTCAATGCTTAGAAATGT--ACAAC
*
231542 AACAAAAATCCATTCACAATTTTCTGTATTTTTGACCCAATCAATTTCATTGTGGCCTTAAGCTA
64 AACAAAAATCCATTCACAACTTTCTGTATTTTTGACCCAATCAATTTCATTGTGGCCTTAAGCTA
231607 ATAGATAACAAACAATTACACATAAAAAGAATGCTAAGAT
129 ATAGATAACAAACAATTACACATAAAAAGAATGCTAAGAT
*
231647 TCAGAAATGGTTGTATGTTAAATGCTAGTACATGCTAAGATTCAATGCTTAGAAATGT-CAACAA
1 TCAGAAATGGTTGTAGGTTAAATGCTAGTACATGCTAAGATTCAATGCTTAGAAATGTACAACAA
231711 CAAAAATCCATTCACAACTTTCTGTATTTTTGACCCAATCAATTTCATTGTGGCCTTAAGCTAAT
66 CAAAAATCCATTCACAACTTTCTGTATTTTTGACCCAATCAATTTCATTGTGGCCTTAAGCTAAT
*
231776 AGATAACAAACAATTACACATAAAAAGTATGCT
131 AGATAACAAACAATTACACATAAAAAGAATGCT
231809 GTCAGATTAA
Statistics
Matches: 159, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
167 102 0.64
170 57 0.36
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (168 bp):
TCAGAAATGGTTGTAGGTTAAATGCTAGTACATGCTAAGATTCAATGCTTAGAAATGTACAACAA
CAAAAATCCATTCACAACTTTCTGTATTTTTGACCCAATCAATTTCATTGTGGCCTTAAGCTAAT
AGATAACAAACAATTACACATAAAAAGAATGCTAAGAT
Found at i:236224 original size:30 final size:31
Alignment explanation
Indices: 236190--236251 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
236180 AATTTGGTGA
236190 ATTCAATATGTC-TTCTCACTAGGAACTCCC
1 ATTCAATATGTCATTCTCACTAGGAACTCCC
236220 ATTCAATATGTCATTCTCACTAGGAACTCCC
1 ATTCAATATGTCATTCTCACTAGGAACTCCC
236251 A
1 A
236252 AACTCTTGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 12 0.39
31 19 0.61
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (31 bp):
ATTCAATATGTCATTCTCACTAGGAACTCCC
Found at i:239465 original size:22 final size:22
Alignment explanation
Indices: 239434--239476 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
239424 CGTTAAAAAT
239434 ACTAACATTTATATAGCTATTA
1 ACTAACATTTATATAGCTATTA
* *
239456 ACTAATATTTATATAGTTATT
1 ACTAACATTTATATAGCTATT
239477 TAATAAATCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.47
Consensus pattern (22 bp):
ACTAACATTTATATAGCTATTA
Found at i:242483 original size:2 final size:2
Alignment explanation
Indices: 242478--242509 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
242468 TTTTTGTGTG
242478 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
242510 GTTTTAGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:249611 original size:31 final size:31
Alignment explanation
Indices: 249573--249634 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
249563 AATCCTGATG
249573 CACCAACAAACAAA-AAACCAAATAATTCAGC
1 CACCAACAAACAAAGAAA-CAAATAATTCAGC
249604 CACCAACAAACAAAGAAACAAATAATTCAGC
1 CACCAACAAACAAAGAAACAAATAATTCAGC
249635 TCTGACTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 27 0.90
32 3 0.10
ACGTcount: A:0.58, C:0.27, G:0.05, T:0.10
Consensus pattern (31 bp):
CACCAACAAACAAAGAAACAAATAATTCAGC
Found at i:252533 original size:15 final size:15
Alignment explanation
Indices: 252515--252565 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
252505 TTCCGGAAAA
252515 TGAATTACTGGAATT
1 TGAATTACTGGAATT
* **
252530 TGAATTATTGGAAAA
1 TGAATTACTGGAATT
252545 TGAATTACTGGAATT
1 TGAATTACTGGAATT
252560 TGAATT
1 TGAATT
252566 TTGGAAAATG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:252579 original size:29 final size:30
Alignment explanation
Indices: 252509--252580 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
252499 TTGGTTTTCC
252509 GGAAAATGAATTACTGGAATTTGAATTATT
1 GGAAAATGAATTACTGGAATTTGAATTATT
252539 GGAAAATGAATTACTGGAATTTGAATT-TT
1 GGAAAATGAATTACTGGAATTTGAATTATT
252568 GGAAAATGAATTA
1 GGAAAATGAATTA
252581 AATTTCTGGA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 15 0.36
30 27 0.64
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.35
Consensus pattern (30 bp):
GGAAAATGAATTACTGGAATTTGAATTATT
Found at i:252622 original size:14 final size:14
Alignment explanation
Indices: 252590--252623 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
252580 AAATTTCTGG
*
252590 AAAACGTTTTCCGA
1 AAAATGTTTTCCGA
*
252604 AAAATGTTTTCCGT
1 AAAATGTTTTCCGA
252618 AAAATG
1 AAAATG
252624 AATTACATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (14 bp):
AAAATGTTTTCCGA
Found at i:253046 original size:26 final size:26
Alignment explanation
Indices: 252960--253111 Score: 109
Period size: 26 Copynumber: 5.8 Consensus size: 26
252950 TTTTATTGAA
*
252960 ATATTATTTAAATATAAATA-ATATT
1 ATATTATTAAAATATAAATATATATT
* *
252985 ATTCATTATTAAATATATAAATTTTTATT
1 A-T-ATTATTAAA-ATATAAATATATATT
* *
253014 ATA-TATTAAAATAAAAATATATCTT
1 ATATTATTAAAATATAAATATATATT
* * *
253039 ATATTATTATAATATAATTGATTATTTT
1 ATATTATTAAAATATAAAT-A-TATATT
253067 ATATAATATTAAAA-AT--ATA-ATATT
1 ATAT--TATTAAAATATAAATATATATT
*
253091 ATATTATTATAAATATTAATA
1 ATATTATTA-AAATATAAATA
253112 AATTAATAAA
Statistics
Matches: 100, Mismatches: 14, Indels: 25
0.72 0.10 0.18
Matches are distributed among these distances:
22 5 0.05
23 3 0.03
24 10 0.10
25 15 0.15
26 24 0.24
27 11 0.11
28 18 0.18
29 7 0.07
30 7 0.07
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (26 bp):
ATATTATTAAAATATAAATATATATT
Found at i:253085 original size:31 final size:33
Alignment explanation
Indices: 253039--253118 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 33
253029 AATATATCTT
* *
253039 ATATTATTATAATATAATTGATTATTTTA-TAT-A
1 ATATTAATA-AATATAATT-ATTATATTATTATAA
253072 ATATTAA-AAATATAA-TATTATATTATTATAA
1 ATATTAATAAATATAATTATTATATTATTATAA
253103 ATATTAATAAAT-TAAT
1 ATATTAATAAATATAAT
253119 AAATAATATT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
29 8 0.20
30 4 0.10
31 18 0.44
32 5 0.12
33 6 0.15
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (33 bp):
ATATTAATAAATATAATTATTATATTATTATAA
Done.